# File lib/biointerchange/so.rb, line 1431 def self.primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000185') end
class BioInterchange::SO
Public Class Methods
A conserved 17-bp sequence (5’-ATCA(C/A)AACCCTAACCCT-3’) commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site. (purl.obolibrary.org/obo/SO_0001901)
# File lib/biointerchange/so.rb, line 11611 def self.AACCCT_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001901') end
A PCR product obtained by applying the AFLP technique, based on a restriction enzyme digestion of genomic DNA
and an amplification of the resulting fragments. (purl.obolibrary.org/obo/SO_0001830)
# File lib/biointerchange/so.rb, line 11185 def self.AFLP_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001830') end
A promoter element with consensus sequence TGACTCA, bound by AP-1 and related transcription factors. (purl.obolibrary.org/obo/SO_0001842)
# File lib/biointerchange/so.rb, line 11257 def self.AP_1_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001842') end
A non-coding RNA
transcript, derived from the transcription of the telomere. These transcripts consist of C rich repeats. (purl.obolibrary.org/obo/SO_0001925)
# File lib/biointerchange/so.rb, line 11755 def self.ARIA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001925') end
A non coding RNA
transcript, complementary to subtelomeric tract of TERRA
transcript but devoid of the repeats. (purl.obolibrary.org/obo/SO_0001924)
# File lib/biointerchange/so.rb, line 11749 def self.ARRET return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001924') end
A sequence that can autonomously replicate, as a plasmid, when transformed into a bacterial host. (purl.obolibrary.org/obo/SO_0000436)
# File lib/biointerchange/so.rb, line 2931 def self.ARS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000436') end
The ACS is an 11-bp sequence of the form 5’-WTTTAYRTTTW-3’ which is at the core of every yeast ARS
, and is necessary but not sufficient for recognition and binding by the origin recognition complex (ORC). Functional ARSs require an ACS, as well as other cis elements in the 5’ (C domain) and 3’ (B domain) flanking sequences of the ACS. (purl.obolibrary.org/obo/SO_0002004)
# File lib/biointerchange/so.rb, line 12227 def self.ARS_consensus_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002004') end
"A primer containing an SNV
at the 3’ end for accurate genotyping. (www.ncbi.nlm.nih.gov/pubmed/11252801) (purl.obolibrary.org/obo/SO_0001698)
# File lib/biointerchange/so.rb, line 10399 def self.ASPE_primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001698') end
A cis-acting element found in the 3’ UTR
of some mRNA which is rich in AUUUA pentamers. Messenger RNAs bearing multiple AU-rich elements are often unstable. (purl.obolibrary.org/obo/SO_0001180)
# File lib/biointerchange/so.rb, line 7351 def self.AU_rich_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001180') end
A variably distant linear promoter region recognized by TFIIIC, with consensus sequence TGGCnnAGTGG. (purl.obolibrary.org/obo/SO_0000619)
# File lib/biointerchange/so.rb, line 4037 def self.A_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000619') end
An A box within an RNA
polymerase III type 1 promoter. (purl.obolibrary.org/obo/SO_0001675)
# File lib/biointerchange/so.rb, line 10261 def self.A_box_type_1 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001675') end
An A box within an RNA
polymerase III type 2 promoter. (purl.obolibrary.org/obo/SO_0001676)
# File lib/biointerchange/so.rb, line 10267 def self.A_box_type_2 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001676') end
A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix. (purl.obolibrary.org/obo/SO_0000022)
# File lib/biointerchange/so.rb, line 441 def self.A_minor_RNA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000022') end
A transversion from adenine to cytidine. (purl.obolibrary.org/obo/SO_1000024)
# File lib/biointerchange/so.rb, line 12587 def self.A_to_C_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000024') end
A transition of an adenine to a guanine. (purl.obolibrary.org/obo/SO_1000015)
# File lib/biointerchange/so.rb, line 12533 def self.A_to_G_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000015') end
A transversion from adenine to thymine. (purl.obolibrary.org/obo/SO_1000025)
# File lib/biointerchange/so.rb, line 12593 def self.A_to_T_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000025') end
A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2. (purl.obolibrary.org/obo/SO_0001857)
# File lib/biointerchange/so.rb, line 11347 def self.Ace2_UAS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001857') end
Bacterial Artificial Chromosome, a cloning vector that can be propagated as mini-chromosomes in a bacterial host. (purl.obolibrary.org/obo/SO_0000153)
# File lib/biointerchange/so.rb, line 1235 def self.BAC return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000153') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000764)
# File lib/biointerchange/so.rb, line 4907 def self.BAC_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000764') end
Requested by Andy Schroder - Flybase Harvard, Nov 2006. (purl.obolibrary.org/obo/SO_0000992)
# File lib/biointerchange/so.rb, line 6227 def self.BAC_cloned_genomic_insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000992') end
A region of sequence from the end of a BAC
clone that may provide a highly specific marker. (purl.obolibrary.org/obo/SO_0000999)
# File lib/biointerchange/so.rb, line 6269 def self.BAC_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000999') end
A contig of BAC
reads. (purl.obolibrary.org/obo/SO_0001866)
# File lib/biointerchange/so.rb, line 11401 def self.BAC_read_contig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001866') end
A core TRNA polymerase II promoter element with consensus (G/A)T(T/G/A)(T/A)(G/T)(T/G)(T/G). (purl.obolibrary.org/obo/SO_0001663)
# File lib/biointerchange/so.rb, line 10189 def self.BREd_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001663') end
A sequence element characteristic of some RNA
polymerase II promoters, located immediately upstream of some TATA box elements at -37 to -32 with respect to the TSS
(+1). Consensus sequence is (G|C)(G|C)(G|A)CGCC. Binds TFIIB. (purl.obolibrary.org/obo/SO_0000016)
# File lib/biointerchange/so.rb, line 411 def self.BREu_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000016') end
A variably distant linear promoter region recognized by TFIIIC, with consensus sequence AGGTTCCAnnCC. (purl.obolibrary.org/obo/SO_0000620)
# File lib/biointerchange/so.rb, line 4043 def self.B_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000620') end
A cis-acting element found in the 3’ UTR
of some mRNA which is bound by the Drosophila Bruno protein and its homologs. (purl.obolibrary.org/obo/SO_0001181)
# File lib/biointerchange/so.rb, line 7357 def self.Bruno_response_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001181') end
Part of a conserved sequence located about 75-bp upstream of the start point of eukaryotic transcription units which may be involved in RNA
polymerase binding; consensus=GG(C|T)CAATCT. (purl.obolibrary.org/obo/SO_0000172)
# File lib/biointerchange/so.rb, line 1349 def self.CAAT_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000172') end
A kind of transcription_initiation_cluster defined by the clustering of CAGE tags on a sequence region. (purl.obolibrary.org/obo/SO_0001917)
# File lib/biointerchange/so.rb, line 11707 def self.CAGE_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001917') end
A CAGE tag is a sequence tag hat corresponds to 5’ ends of mRNA at cap sites, produced by cap analysis gene expression and used to identify transcriptional start sites. (purl.obolibrary.org/obo/SO_0001916)
# File lib/biointerchange/so.rb, line 11701 def self.CAGE_tag return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001916') end
A promoter element with consensus sequence CCAAT, bound by a protein complex that represses transcription in response to low iron levels. (purl.obolibrary.org/obo/SO_0001856)
# File lib/biointerchange/so.rb, line 11341 def self.CCAAT_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001856') end
Base sequence at the 3’ end of a tRNA. The 3’-hydroxyl group on the terminal adenosine is the attachment point for the amino acid. (purl.obolibrary.org/obo/SO_0001175)
# File lib/biointerchange/so.rb, line 7321 def self.CCA_tail return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001175') end
An RNA
polymerase II promoter element found in the promoters of genes regulated by calcineurin. The consensus sequence is GNGGCKCA. (purl.obolibrary.org/obo/SO_0001865)
# File lib/biointerchange/so.rb, line 11395 def self.CDRE_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001865') end
A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon. (purl.obolibrary.org/obo/SO_0000316)
# File lib/biointerchange/so.rb, line 2217 def self.CDS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000316') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001384)
# File lib/biointerchange/so.rb, line 8569 def self.CDS_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001384') end
A CDS
with the evidence status of being independently known. (purl.obolibrary.org/obo/SO_1001246)
# File lib/biointerchange/so.rb, line 13463 def self.CDS_independently_known return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001246') end
A CDS
that is predicted. (purl.obolibrary.org/obo/SO_1001254)
# File lib/biointerchange/so.rb, line 13487 def self.CDS_predicted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001254') end
A region of a CDS
. (purl.obolibrary.org/obo/SO_0000851)
# File lib/biointerchange/so.rb, line 5387 def self.CDS_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000851') end
A CDS
that is supported by similarity to EST
or cDNA data. (purl.obolibrary.org/obo/SO_1001259)
# File lib/biointerchange/so.rb, line 13499 def self.CDS_supported_by_EST_or_cDNA_data return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001259') end
A CDS
that is supported by domain similarity. (purl.obolibrary.org/obo/SO_1001249)
# File lib/biointerchange/so.rb, line 13475 def self.CDS_supported_by_domain_match_data return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001249') end
A CDS
that is supported by sequence similarity data. (purl.obolibrary.org/obo/SO_1001251)
# File lib/biointerchange/so.rb, line 13481 def self.CDS_supported_by_sequence_similarity_data return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001251') end
A promoter element with consensus sequence TGACGTCA; bound by the ATF/CREB family of transcription factors. (purl.obolibrary.org/obo/SO_0001843)
# File lib/biointerchange/so.rb, line 11263 def self.CRE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001843') end
Clustered Palindromic Repeats interspersed with bacteriophage derived spacer sequences. (purl.obolibrary.org/obo/SO_0001459)
# File lib/biointerchange/so.rb, line 9013 def self.CRISPR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001459') end
A regulatory region where transcription factor binding sites clustered to regulate various aspects of transcription activities. (CRMs can be located a few kb to hundred kb upstream of the basal promoter, in the coding sequence, within introns, or in the downstream 3’UTR sequences, as well as on different chromosome). A single gene can be regulated by multiple CRMs to give precise control of its spatial and temporal expression. CRMs function as nodes in large, intertwined regulatory network. (purl.obolibrary.org/obo/SO_0000727)
# File lib/biointerchange/so.rb, line 4685 def self.CRM return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000727') end
A promoter element with consensus sequence GTGRGAA, bound by CSL (CBF1/RBP-JK/Suppressor of Hairless/LAG-1) transcription factors. (purl.obolibrary.org/obo/SO_0001839)
# File lib/biointerchange/so.rb, line 11239 def self.CSL_response_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001839') end
A transcription factor binding site with consensus sequence CCGCGNGGNGGCAG, bound by CCCTF-binding factor. (purl.obolibrary.org/obo/SO_0001974)
# File lib/biointerchange/so.rb, line 12053 def self.CTCF_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001974') end
A non-canonical start codon of sequence CTG. (purl.obolibrary.org/obo/SO_1001273)
# File lib/biointerchange/so.rb, line 13583 def self.CTG_start_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001273') end
Most box C/D snoRNAs also contain long (>10 nt) sequences complementary to rRNA. Boxes C and D, as well as boxes C’ and D’, are usually located in close proximity, and form a structure known as the box C/D motif. This motif is important for snoRNA stability, processing, nucleolar targeting and function. A small number of box C/D snoRNAs are involved in rRNA processing; most, however, are known or predicted to serve as guide RNAs in ribose methylation of rRNA. Targeting involves direct base pairing of the snoRNA at the rRNA site to be modified and selection of a rRNA nucleotide a fixed distance from box D or D’. (purl.obolibrary.org/obo/SO_0000593)
# File lib/biointerchange/so.rb, line 3881 def self.C_D_box_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000593') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000585)
# File lib/biointerchange/so.rb, line 3833 def self.C_D_box_snoRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000585') end
A primary transcript encoding a small nucleolar RNA
of the box C/D family. (purl.obolibrary.org/obo/SO_0000595)
# File lib/biointerchange/so.rb, line 3893 def self.C_D_box_snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000595') end
An RNA
polymerase III type 1 promoter with consensus sequence CAnnCCn. (purl.obolibrary.org/obo/SO_0000622)
# File lib/biointerchange/so.rb, line 4055 def self.C_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000622') end
Genomic DNA
of immunoglobulin/T-cell receptor gene including more than one C-gene. (purl.obolibrary.org/obo/SO_0000558)
# File lib/biointerchange/so.rb, line 3671 def self.C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000558') end
Genomic DNA
of immunoglobulin/T-cell receptor gene including C-region (and introns if present) with 5’ UTR
(SO:0000204) and 3’ UTR
(SO:0000205). (purl.obolibrary.org/obo/SO_0000478)
# File lib/biointerchange/so.rb, line 3187 def self.C_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000478') end
The constant region of an immunoglobulin polypeptide sequence. (purl.obolibrary.org/obo/SO_0001834)
# File lib/biointerchange/so.rb, line 11209 def self.C_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001834') end
A transversion from cytidine to adenine. (purl.obolibrary.org/obo/SO_1000019)
# File lib/biointerchange/so.rb, line 12557 def self.C_to_A_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000019') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000020)
# File lib/biointerchange/so.rb, line 12563 def self.C_to_G_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000020') end
A transition of a cytidine to a thymine. (purl.obolibrary.org/obo/SO_1000011)
# File lib/biointerchange/so.rb, line 12509 def self.C_to_T_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000011') end
The transition of cytidine to thymine occurring at a pCpG site as a consequence of the spontaneous deamination of 5’-methylcytidine. (purl.obolibrary.org/obo/SO_1000012)
# File lib/biointerchange/so.rb, line 12515 def self.C_to_T_transition_at_pCpG_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000012') end
A region of sequence identified by CHiP seq technology to contain a protein binding site. (purl.obolibrary.org/obo/SO_0001697)
# File lib/biointerchange/so.rb, line 10393 def self.ChIP_seq_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001697') end
Regions of a few hundred to a few thousand bases in vertebrate genomes that are relatively GC and CpG rich; they are typically unmethylated and often found near the 5’ ends of genes. (purl.obolibrary.org/obo/SO_0000307)
# File lib/biointerchange/so.rb, line 2163 def self.CpG_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000307') end
An enterobacterial RNA
that binds the CsrA protein. The CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18 copies and has been suggested to bind CsrA. The Csr regulatory system has a strong negative regulatory effect on glycogen biosynthesis, glyconeogenesis and glycogen catabolism and a positive regulatory effect on glycolysis. In other bacteria such as Erwinia caratovara the RsmA protein has been shown to regulate the production of virulence determinants, such extracellular enzymes. RsmA binds to RsmB regulatory RNA
which is also a member of this family. (purl.obolibrary.org/obo/SO_0000377)
# File lib/biointerchange/so.rb, line 2577 def self.CsrB_RsmB_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000377') end
A promoter element bound by copper ion-sensing transcription factors such as S. cerevisiae Mac1p or S. pombe Cuf1; the consensus sequence is HTHNNGCTGD (more specifically TTTGCKCR in budding yeast). (purl.obolibrary.org/obo/SO_0001844)
# File lib/biointerchange/so.rb, line 11269 def self.CuRE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001844') end
A genetic marker, discovered using Diversity Arrays Technology (DArT) technology. (purl.obolibrary.org/obo/SO_0001646)
# File lib/biointerchange/so.rb, line 10111 def self.DArT_marker return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001646') end
A discontinuous core element of RNA
polymerase II transcribed genes, situated downstream of the TSS
. It is composed of three sub elements: SI, SII and SIII. (purl.obolibrary.org/obo/SO_0001664)
# File lib/biointerchange/so.rb, line 10195 def self.DCE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001664') end
A sub element of the DCE
core promoter element, with consensus sequence CTTC. (purl.obolibrary.org/obo/SO_0001665)
# File lib/biointerchange/so.rb, line 10201 def self.DCE_SI return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001665') end
A sub element of the DCE
core promoter element with consensus sequence CTGT. (purl.obolibrary.org/obo/SO_0001666)
# File lib/biointerchange/so.rb, line 10207 def self.DCE_SII return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001666') end
A sub element of the DCE
core promoter element with consensus sequence AGC. (purl.obolibrary.org/obo/SO_0001667)
# File lib/biointerchange/so.rb, line 10213 def self.DCE_SIII return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001667') end
A conserved polypeptide motif that mediates protein-protein interaction and defines adaptor proteins for DDB1/cullin 4 ubiquitin ligases. (purl.obolibrary.org/obo/SO_0001804)
# File lib/biointerchange/so.rb, line 11029 def self.DDB_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001804') end
Non-base-paired sequence of nucleotide bases in tRNA. It contains several dihydrouracil residues. (purl.obolibrary.org/obo/SO_0001176)
# File lib/biointerchange/so.rb, line 7327 def self.DHU_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001176') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000539)
# File lib/biointerchange/so.rb, line 3553 def self.DJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000539') end
Genomic DNA
in rearranged configuration including at least one D-J-GENE, one J-GENE and one C-GENE. (purl.obolibrary.org/obo/SO_0000540)
# File lib/biointerchange/so.rb, line 3559 def self.DJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000540') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene, and one J-gene. (purl.obolibrary.org/obo/SO_0000485)
# File lib/biointerchange/so.rb, line 3229 def self.DJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000485') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA
including D-J-region with 5’ UTR
and 3’ UTR
, also designated as D-J-segment. (purl.obolibrary.org/obo/SO_0000572)
# File lib/biointerchange/so.rb, line 3755 def self.DJ_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000572') end
A promoter motif with consensus sequence CARCCCT. (purl.obolibrary.org/obo/SO_0001165)
# File lib/biointerchange/so.rb, line 7261 def self.DMv1_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001165') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between -60 and -45 relative to the TSS
. Consensus sequence is MKSYGGCARCGSYSS. Tends to co-occur with DMv3 (SO:0001160). Tends to not occur with DPE motif (SO:0000015) or MTE
(SO:0001162). (purl.obolibrary.org/obo/SO_0001161)
# File lib/biointerchange/so.rb, line 7237 def self.DMv2_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001161') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between -30 and +15 relative to the TSS
. Consensus sequence is KNNCAKCNCTRNY. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015) or MTE
(0001162). (purl.obolibrary.org/obo/SO_0001160)
# File lib/biointerchange/so.rb, line 7231 def self.DMv3_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001160') end
A sequence element characteristic of some RNA
polymerase II promoters, located immediately upstream of some TATA box elements with respect to the TSS
(+1). Consensus sequence is YGGTCACACTR. Marked spatial preference within core promoter; tend to occur near the TSS
, although not as tightly as INR (SO:0000014). (purl.obolibrary.org/obo/SO_0001157)
# File lib/biointerchange/so.rb, line 7213 def self.DMv4_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001157') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between -50 and -10 relative to the TSS
. Consensus sequence is KTYRGTATWTTT. Tends to co-occur with DMv4 (SO:0001157) . Tends to not occur with DPE motif (SO:0000015) or MTE
(SO:0001162). (purl.obolibrary.org/obo/SO_0001159)
# File lib/biointerchange/so.rb, line 7225 def self.DMv5_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001159') end
An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a 2-deoxy-D-ribose ring connected to a phosphate backbone. (purl.obolibrary.org/obo/SO_0000352)
# File lib/biointerchange/so.rb, line 2433 def self.DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000352') end
DNA
molecules that have been selected from random pools based on their ability to bind other molecules. (purl.obolibrary.org/obo/SO_0000032)
# File lib/biointerchange/so.rb, line 501 def self.DNA_aptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000032') end
A binding site that, in the molecule, interacts selectively and non-covalently with DNA
. (purl.obolibrary.org/obo/SO_0001429)
# File lib/biointerchange/so.rb, line 8839 def self.DNA_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001429') end
Structural unit composed of a self-replicating, DNA
molecule. (purl.obolibrary.org/obo/SO_0000954)
# File lib/biointerchange/so.rb, line 6005 def self.DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000954') end
A double-stranded DNA
used to control macromolecular structure and function. (www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search&db=pubmed&term=SILVERMAN+SK[au]&dispmax=50) (purl.obolibrary.org/obo/SO_0001009)
# File lib/biointerchange/so.rb, line 6329 def self.DNA_constraint_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001009') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000660)
# File lib/biointerchange/so.rb, line 4283 def self.DNA_invertase_target_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000660') end
A motif that is active in the DNA
form of the sequence. (purl.obolibrary.org/obo/SO_0000713)
# File lib/biointerchange/so.rb, line 4601 def self.DNA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000713') end
This has been obsoleted as it represents a process. replaced_by: GO:0006260. (purl.obolibrary.org/obo/SO_0000971)
# File lib/biointerchange/so.rb, line 6107 def self.DNA_replication_mode return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000971') end
A folded DNA
sequence. (purl.obolibrary.org/obo/SO_0000142)
# File lib/biointerchange/so.rb, line 1169 def self.DNA_sequence_secondary_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000142') end
A transposon where the mechanism of transposition is via a DNA
intermediate. (purl.obolibrary.org/obo/SO_0000182)
# File lib/biointerchange/so.rb, line 1413 def self.DNA_transposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000182') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000685)
# File lib/biointerchange/so.rb, line 4433 def self.DNAseI_hypersensitive_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000685') end
A DNA
sequence with catalytic activity. (purl.obolibrary.org/obo/SO_0001012)
# File lib/biointerchange/so.rb, line 6347 def self.DNAzyme return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001012') end
A promoter motif with consensus sequence CGGACGT. (purl.obolibrary.org/obo/SO_0001164)
# File lib/biointerchange/so.rb, line 7255 def self.DPE1_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001164') end
A sequence element characteristic of some RNA
polymerase II promoters; Positioned from +28 to +32 with respect to the TSS
(+1). Experimental results suggest that the DPE acts in conjunction with the INR_motif
to provide a binding site for TFIID in the absence of a TATA box to mediate transcription of TATA-less promoters. Consensus sequence (A|G)G(A|T)(C|T)(G|A|C). (purl.obolibrary.org/obo/SO_0000015)
# File lib/biointerchange/so.rb, line 405 def self.DPE_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000015') end
A promoter element with consensus sequence CGWGGWNGMM, bound by transcription factors related to RecA and found in promoters of genes expressed following several types of DNA
damage or inhibition of DNA
synthesis. (purl.obolibrary.org/obo/SO_0001845)
# File lib/biointerchange/so.rb, line 11275 def self.DRE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001845') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between -10 and -60 relative to the TSS
. Consensus sequence is WATCGATW. (purl.obolibrary.org/obo/SO_0001156)
# File lib/biointerchange/so.rb, line 7207 def self.DRE_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001156') end
The determinant of selective removal (DSR) motif consists of repeats of U(U/C)AAAC. The motif targets meiotic transcripts for removal during mitosis via the exosome. (purl.obolibrary.org/obo/SO_0002005)
# File lib/biointerchange/so.rb, line 12233 def self.DSR_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002005') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000504)
# File lib/biointerchange/so.rb, line 3343 def self.D_DJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000504') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000506)
# File lib/biointerchange/so.rb, line 3355 def self.D_DJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000506') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, and one J-gene. (purl.obolibrary.org/obo/SO_0000508)
# File lib/biointerchange/so.rb, line 3367 def self.D_DJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000508') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene and one DJ-gene. (purl.obolibrary.org/obo/SO_0000505)
# File lib/biointerchange/so.rb, line 3349 def self.D_DJ_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000505') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000509)
# File lib/biointerchange/so.rb, line 3373 def self.D_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000509') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000560)
# File lib/biointerchange/so.rb, line 3683 def self.D_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000560') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including more than one D-gene. (purl.obolibrary.org/obo/SO_0000559)
# File lib/biointerchange/so.rb, line 3677 def self.D_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000559') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000492)
# File lib/biointerchange/so.rb, line 3271 def self.D_gene_recombination_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000492') end
Germline genomic DNA
including D-region with 5’ UTR
and 3’ UTR
, also designated as D-segment. (purl.obolibrary.org/obo/SO_0000458)
# File lib/biointerchange/so.rb, line 3067 def self.D_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000458') end
Displacement loop; a region within mitochondrial DNA
in which a short stretch of RNA
is paired with one strand of DNA
, displacing the original partner DNA
strand in this region; also used to describe the displacement of a region of one strand of duplex DNA
by a single stranded invader in the reaction catalyzed by RecA protein. (purl.obolibrary.org/obo/SO_0000297)
# File lib/biointerchange/so.rb, line 2103 def self.D_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000297') end
DsrA RNA
regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA
is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA
, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation. (purl.obolibrary.org/obo/SO_0000378)
# File lib/biointerchange/so.rb, line 2583 def self.DsrA_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000378') end
A C-terminal tetrapeptide motif that mediates retention of a protein in (or retrieval to) the endoplasmic reticulum. In mammals the sequence is KDEL, and in fungi HDEL or DDEL. (purl.obolibrary.org/obo/SO_0001806)
# File lib/biointerchange/so.rb, line 11041 def self.ER_retention_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001806') end
A tag produced from a single sequencing read from a cDNA clone or PCR product; typically a few hundred base pairs long. (purl.obolibrary.org/obo/SO_0000345)
# File lib/biointerchange/so.rb, line 2391 def self.EST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000345') end
A match against an EST
sequence. (purl.obolibrary.org/obo/SO_0000668)
# File lib/biointerchange/so.rb, line 4331 def self.EST_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000668') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between -60 and +1 relative to the TSS
. Consensus sequence is AWCAGCTGWT. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015). (purl.obolibrary.org/obo/SO_0001158)
# File lib/biointerchange/so.rb, line 7219 def self.E_box_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001158') end
A promoter element that has consensus sequence GTAAACAAACAAAM and contains a heptameric core GTAAACA, bound by transcription factors with a forkhead DNA-binding domain. (purl.obolibrary.org/obo/SO_0001846)
# File lib/biointerchange/so.rb, line 11281 def self.FLEX_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001846') end
An attribute to describe sequence that is flanked by the FLP recombinase recognition site, FRT. (purl.obolibrary.org/obo/SO_0000361)
# File lib/biointerchange/so.rb, line 2481 def self.FRT_flanked return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000361') end
An inversion site found on the Saccharomyces cerevisiae 2 micron plasmid. (purl.obolibrary.org/obo/SO_0000350)
# File lib/biointerchange/so.rb, line 2421 def self.FRT_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000350') end
A non directional promoter motif with consensus sequence GAGAGCG. (purl.obolibrary.org/obo/SO_0001166)
# File lib/biointerchange/so.rb, line 7267 def self.GAGA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001166') end
A GATA transcription factor element containing the consensus sequence WGATAR (in which W indicates A/T and R indicates A/G). (purl.obolibrary.org/obo/SO_0001840)
# File lib/biointerchange/so.rb, line 11245 def self.GATA_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001840') end
A conserved GC-rich region located upstream of the start point of eukaryotic transcription units which may occur in multiple copies or in either orientation; consensus=GGGCGG. (purl.obolibrary.org/obo/SO_0000173)
# File lib/biointerchange/so.rb, line 1355 def self.GC_rich_promoter_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000173') end
An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of an acyclic three-carbon propylene glycol connected to a phosphate backbone. It has two enantiomeric forms, ®-GNA and (S)-GNA. (purl.obolibrary.org/obo/SO_0001192)
# File lib/biointerchange/so.rb, line 7423 def self.GNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001192') end
An oligo composed of GNA
residues. (purl.obolibrary.org/obo/SO_0001193)
# File lib/biointerchange/so.rb, line 7429 def self.GNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001193') end
A trinucleotide repeat region composed of GTT repeating elements. (purl.obolibrary.org/obo/SO_0001863)
# File lib/biointerchange/so.rb, line 11383 def self.GTT_trinucleotide_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001863') end
A dinucleotide repeat region composed of GT repeating elements. (purl.obolibrary.org/obo/SO_0001862)
# File lib/biointerchange/so.rb, line 11377 def self.GT_dinucleotide_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001862') end
A regulatory promoter element identified in mutation experiments, with consensus sequence: CACGTG. Present in promoters, intergenic regions, coding regions, and introns. They are involved in gene expression responses to light and interact with G-box binding factor and I-box binding factor 1a. (purl.obolibrary.org/obo/SO_0001980)
# File lib/biointerchange/so.rb, line 12083 def self.G_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001980') end
G-quartets are unusual nucleic acid structures consisting of a planar arrangement where each guanine is hydrogen bonded by hoogsteen pairing to another guanine in the quartet. (purl.obolibrary.org/obo/SO_0000003)
# File lib/biointerchange/so.rb, line 333 def self.G_quartet return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000003') end
A transition of a guanine to an adenine. (purl.obolibrary.org/obo/SO_1000016)
# File lib/biointerchange/so.rb, line 12539 def self.G_to_A_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000016') end
A transversion from guanine to cytidine. (purl.obolibrary.org/obo/SO_1000026)
# File lib/biointerchange/so.rb, line 12599 def self.G_to_C_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000026') end
A transversion from guanine to thymine. (purl.obolibrary.org/obo/SO_1000027)
# File lib/biointerchange/so.rb, line 12605 def self.G_to_T_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000027') end
A small untranslated RNA
involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli. (purl.obolibrary.org/obo/SO_0000379)
# File lib/biointerchange/so.rb, line 2589 def self.GcvB_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000379') end
A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2A histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001938)
# File lib/biointerchange/so.rb, line 11833 def self.H2AK5_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001938') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H2A histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001944)
# File lib/biointerchange/so.rb, line 11869 def self.H2AK9_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001944') end
A kind of histone modification site, whereby the 120th residue (a lysine), from the start of the H2B histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001940)
# File lib/biointerchange/so.rb, line 11845 def self.H2BK120_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001940') end
A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H2B protein is methylated. (purl.obolibrary.org/obo/SO_0001937)
# File lib/biointerchange/so.rb, line 11827 def self.H2BK12_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001937') end
A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2B histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001946)
# File lib/biointerchange/so.rb, line 11881 def self.H2BK15_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001946') end
A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H2B histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001942)
# File lib/biointerchange/so.rb, line 11857 def self.H2BK20_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001942') end
A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B protein is methylated. (purl.obolibrary.org/obo/SO_0001714)
# File lib/biointerchange/so.rb, line 10495 def self.H2BK5_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001714') end
A histone modification site on H2B where ubiquitin may be added. (purl.obolibrary.org/obo/SO_0001717)
# File lib/biointerchange/so.rb, line 10513 def self.H2B_ubiquitination_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001717') end
A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001704)
# File lib/biointerchange/so.rb, line 10435 def self.H3K14_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001704') end
A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001718)
# File lib/biointerchange/so.rb, line 10519 def self.H3K18_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001718') end
A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H3 protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001935)
# File lib/biointerchange/so.rb, line 11815 def self.H3K20_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001935') end
A kind of histone modification, whereby the 23rd residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001719)
# File lib/biointerchange/so.rb, line 10525 def self.H3K23_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001719') end
A kind of histone modification site, whereby the 23rd residue (a lysine), from the start of the H3 protein is di-methylated. (purl.obolibrary.org/obo/SO_0001951)
# File lib/biointerchange/so.rb, line 11911 def self.H3K23_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001951') end
A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001721)
# File lib/biointerchange/so.rb, line 10537 def self.H3K27_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001721') end
A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is di-methylated. (purl.obolibrary.org/obo/SO_0001726)
# File lib/biointerchange/so.rb, line 10567 def self.H3K27_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001726') end
A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is methylated. (purl.obolibrary.org/obo/SO_0001732)
# File lib/biointerchange/so.rb, line 10603 def self.H3K27_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001732') end
A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001708)
# File lib/biointerchange/so.rb, line 10459 def self.H3K27_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001708') end
A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001709)
# File lib/biointerchange/so.rb, line 10465 def self.H3K27_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001709') end
A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001936)
# File lib/biointerchange/so.rb, line 11821 def self.H3K36_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001936') end
A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is dimethylated. (purl.obolibrary.org/obo/SO_0001723)
# File lib/biointerchange/so.rb, line 10549 def self.H3K36_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001723') end
A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is methylated. (purl.obolibrary.org/obo/SO_0001733)
# File lib/biointerchange/so.rb, line 10609 def self.H3K36_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001733') end
A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001722)
# File lib/biointerchange/so.rb, line 10543 def self.H3K36_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001722') end
A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001724)
# File lib/biointerchange/so.rb, line 10555 def self.H3K36_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001724') end
A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is di-methylated. (purl.obolibrary.org/obo/SO_0001725)
# File lib/biointerchange/so.rb, line 10561 def self.H3K4_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001725') end
A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is methylated. (purl.obolibrary.org/obo/SO_0001734)
# File lib/biointerchange/so.rb, line 10615 def self.H3K4_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001734') end
A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001705)
# File lib/biointerchange/so.rb, line 10441 def self.H3K4_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001705') end
A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001706)
# File lib/biointerchange/so.rb, line 10447 def self.H3K4_trimethylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001706') end
A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001943)
# File lib/biointerchange/so.rb, line 11863 def self.H3K4ac_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001943') end
A kind of histone modification site, whereby the 56th residue (a lysine), from the start of the H3 histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001945)
# File lib/biointerchange/so.rb, line 11875 def self.H3K56_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001945') end
A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is di-methylated. (purl.obolibrary.org/obo/SO_0001711)
# File lib/biointerchange/so.rb, line 10477 def self.H3K79_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001711') end
A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is methylated. (purl.obolibrary.org/obo/SO_0001735)
# File lib/biointerchange/so.rb, line 10621 def self.H3K79_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001735') end
A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is mono- methylated. (purl.obolibrary.org/obo/SO_0001710)
# File lib/biointerchange/so.rb, line 10471 def self.H3K79_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001710') end
A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001712)
# File lib/biointerchange/so.rb, line 10483 def self.H3K79_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001712') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001703)
# File lib/biointerchange/so.rb, line 10429 def self.H3K9_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001703') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein may be dimethylated. (purl.obolibrary.org/obo/SO_0001728)
# File lib/biointerchange/so.rb, line 10579 def self.H3K9_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001728') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is methylated. (purl.obolibrary.org/obo/SO_0001736)
# File lib/biointerchange/so.rb, line 10627 def self.H3K9_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001736') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001727)
# File lib/biointerchange/so.rb, line 10573 def self.H3K9_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001727') end
A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001707)
# File lib/biointerchange/so.rb, line 10453 def self.H3K9_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001707') end
A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is di-methylated. (purl.obolibrary.org/obo/SO_0001948)
# File lib/biointerchange/so.rb, line 11893 def self.H3R2_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001948') end
A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001947)
# File lib/biointerchange/so.rb, line 11887 def self.H3R2_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001947') end
A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H4 histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001939)
# File lib/biointerchange/so.rb, line 11839 def self.H4K12_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001939') end
A kind of histone modification site, whereby the 16th residue (a lysine), from the start of the H4 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001729)
# File lib/biointerchange/so.rb, line 10585 def self.H4K16_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001729') end
A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H4histone protein is mono-methylated. (purl.obolibrary.org/obo/SO_0001713)
# File lib/biointerchange/so.rb, line 10489 def self.H4K20_monomethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001713') end
A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H4 protein is tri-methylated. (purl.obolibrary.org/obo/SO_0001950)
# File lib/biointerchange/so.rb, line 11905 def self.H4K4_trimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001950') end
A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H4 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001730)
# File lib/biointerchange/so.rb, line 10591 def self.H4K5_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001730') end
A kind of histone modification site, whereby the 8th residue (a lysine), from the start of the H4 histone protein is acylated. (purl.obolibrary.org/obo/SO_0001731)
# File lib/biointerchange/so.rb, line 10597 def self.H4K8_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001731') end
A kind of histone modification site, whereby the 91st residue (a lysine), from the start of the H4 histone protein is acetylated. (purl.obolibrary.org/obo/SO_0001941)
# File lib/biointerchange/so.rb, line 11851 def self.H4K91_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001941') end
A region of the H4 histone whereby multiple lysines are acylated. (purl.obolibrary.org/obo/SO_0001738)
# File lib/biointerchange/so.rb, line 10639 def self.H4K_acylation_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001738') end
A kind of histone modification site, whereby the 3nd residue (an arginine), from the start of the H4 protein is di-methylated. (purl.obolibrary.org/obo/SO_0001949)
# File lib/biointerchange/so.rb, line 11899 def self.H4R3_dimethylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001949') end
A promoter element that consists of at least three copies of the pentanucleotide NGAAN, bound by the heat shock transcription factor HSF. (purl.obolibrary.org/obo/SO_0001850)
# File lib/biointerchange/so.rb, line 11305 def self.HSE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001850') end
Members of the box H/ACA family contain an ACA triplet, exactly 3 nt upstream from the 3’ end and an H-box in a hinge region that links two structurally similar functional domains of the molecule. Both boxes are important for snoRNA biosynthesis and function. A few box H/ACA snoRNAs are involved in rRNA processing; most others are known or predicted to participate in selection of uridine nucleosides in rRNA to be converted to pseudouridines. Site selection is mediated by direct base pairing of the snoRNA with rRNA through one or both targeting domains. (purl.obolibrary.org/obo/SO_0000594)
# File lib/biointerchange/so.rb, line 3887 def self.H_ACA_box_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000594') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000608)
# File lib/biointerchange/so.rb, line 3971 def self.H_ACA_box_snoRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000608') end
A primary transcript encoding a small nucleolar RNA
of the box H/ACA family. (purl.obolibrary.org/obo/SO_0000596)
# File lib/biointerchange/so.rb, line 3899 def self.H_ACA_box_snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000596') end
A pseudoknot which contains two stems and at least two loops. (purl.obolibrary.org/obo/SO_0000592)
# File lib/biointerchange/so.rb, line 3875 def self.H_pseudoknot return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000592') end
A type of non-canonical base-pairing. This is less energetically favourable than watson crick base pairing. Hoogsteen GC base pairs only have two hydrogen bonds. (purl.obolibrary.org/obo/SO_0000500)
# File lib/biointerchange/so.rb, line 3319 def self.Hoogsteen_base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000500') end
A promoter motif with consensus sequence TCATTCG. (purl.obolibrary.org/obo/SO_0001163)
# File lib/biointerchange/so.rb, line 7249 def self.INR1_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001163') end
A sequence element characteristic of some RNA
polymerase II promoters required for the correct positioning of the polymerase for the start of transcription. Overlaps the TSS
. The mammalian consensus sequence is YYAN(T|A)YY; the Drosophila consensus sequence is TCA(G|T)t(T|C). In each the A is at position +1 with respect to the TSS
. Functionally similar to the TATA box element. (purl.obolibrary.org/obo/SO_0000014)
# File lib/biointerchange/so.rb, line 399 def self.INR_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000014') end
Component of the inversion site located at the left of a region susceptible to site-specific inversion. (purl.obolibrary.org/obo/SO_0001046)
# File lib/biointerchange/so.rb, line 6551 def self.IRLinv_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001046') end
Component of the inversion site located at the right of a region susceptible to site-specific inversion. (purl.obolibrary.org/obo/SO_0001047)
# File lib/biointerchange/so.rb, line 6557 def self.IRRinv_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001047') end
An ISRE
is a transcriptional cis regulatory region, containing the consensus region: YAGTTTC(A/T)YTTTYCC, responsible for increased transcription via interferon binding. (purl.obolibrary.org/obo/SO_0001715)
# File lib/biointerchange/so.rb, line 10501 def self.ISRE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001715') end
A plant regulatory promoter motif, composed of a highly conserved hexamer GATAAG (I-box core). (purl.obolibrary.org/obo/SO_0001982)
# File lib/biointerchange/so.rb, line 12095 def self.I_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001982') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000511)
# File lib/biointerchange/so.rb, line 3385 def self.J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000511') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including more than one J-gene. (purl.obolibrary.org/obo/SO_0000513)
# File lib/biointerchange/so.rb, line 3397 def self.J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000513') end
Recombination signal including J-heptamer, J-spacer and J-nonamer in 5’ of J-region of a J-gene or J-sequence. (purl.obolibrary.org/obo/SO_0000302)
# File lib/biointerchange/so.rb, line 2133 def self.J_gene_recombination_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000302') end
Germline genomic DNA
of an immunoglobulin/T-cell receptor gene including J-region with 5’ UTR
(SO:0000204) and 3’ UTR
(SO:0000205), also designated as J-segment. (purl.obolibrary.org/obo/SO_0000470)
# File lib/biointerchange/so.rb, line 3139 def self.J_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000470') end
7 nucleotide recombination site (e.g. CACAGTG), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000515)
# File lib/biointerchange/so.rb, line 3409 def self.J_heptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000515') end
9 nucleotide recombination site (e.g. GGTTTTTGT), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000514)
# File lib/biointerchange/so.rb, line 3403 def self.J_nonamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000514') end
12 or 23 nucleotide spacer between the J-nonamer and the J-heptamer of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000517)
# File lib/biointerchange/so.rb, line 3421 def self.J_spacer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000517') end
A conserved polypeptide motif that can be recognized by FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is KENXXXN. (purl.obolibrary.org/obo/SO_0001807)
# File lib/biointerchange/so.rb, line 11047 def self.KEN_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001807') end
The kink turn (K-turn) is an RNA
structural motif that creates a sharp (~120 degree) bend between two continuous helices. (purl.obolibrary.org/obo/SO_0000023)
# File lib/biointerchange/so.rb, line 447 def self.K_turn_RNA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000023') end
A dispersed repeat family with many copies, each from 1 to 6 kb long. New elements are generated by retroposition of a transcribed copy. Typically the LINE contains 2 ORF’s one of which is reverse transcriptase, and 3’and 5’ direct repeats. (purl.obolibrary.org/obo/SO_0000194)
# File lib/biointerchange/so.rb, line 1485 def self.LINE_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000194') end
An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of ‘locked’ deoxyribose rings connected to a phosphate backbone. The deoxyribose unit’s conformation is ‘locked’ by a 2’-C,4’-C-oxymethylene link. (purl.obolibrary.org/obo/SO_0001188)
# File lib/biointerchange/so.rb, line 7399 def self.LNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001188') end
An oligo composed of LNA
residues. (purl.obolibrary.org/obo/SO_0001189)
# File lib/biointerchange/so.rb, line 7405 def self.LNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001189') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000848)
# File lib/biointerchange/so.rb, line 5369 def self.LTR_component return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000848') end
A retrotransposon flanked by long terminal repeat sequences. (purl.obolibrary.org/obo/SO_0000186)
# File lib/biointerchange/so.rb, line 1437 def self.LTR_retrotransposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000186') end
An orientation dependent regulatory promoter element, with consensus sequence of TTGCACAN4TTGCACA, found in plants. (purl.obolibrary.org/obo/SO_0001981)
# File lib/biointerchange/so.rb, line 12089 def self.L_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001981') end
A promoter element that contains a core sequence TGACGT, bound by a protein complex that regulates transcription of genes encoding PKA pathway components. (purl.obolibrary.org/obo/SO_0001900)
# File lib/biointerchange/so.rb, line 11605 def self.M26_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001900') end
A promoter element with consensus sequence ACGCGT, bound by the transcription factor complex MBF (MCB-binding factor) and found in promoters of genes expressed during the G1/S transition of the cell cycle. (purl.obolibrary.org/obo/SO_0001855)
# File lib/biointerchange/so.rb, line 11335 def self.MCB return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001855') end
A highly repetitive and short (100-500 base pair) transposable element with terminal inverted repeats (TIR) and target site duplication (TSD). MITEs do not encode proteins. (purl.obolibrary.org/obo/SO_0000338)
# File lib/biointerchange/so.rb, line 2349 def self.MITE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000338') end
A multiple nucleotide polymorphism with alleles of common length > 1, for example AAA/TTT. (purl.obolibrary.org/obo/SO_0001013)
# File lib/biointerchange/so.rb, line 6353 def self.MNP return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001013') end
A multiple nucleotide substitution in which the inserted sequence is the same length as the replaced sequence. (purl.obolibrary.org/obo/SO_0002007)
# File lib/biointerchange/so.rb, line 12245 def self.MNV return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002007') end
A sequence element characteristic of some RNA
polymerase II promoters, usually located between +20 and +30 relative to the TSS
. Consensus sequence is CSARCSSAACGS. Tends to co-occur with INR motif (SO:0000014). Tends to not occur with DPE motif (SO:0000015) or DMv5 (SO:0001159). (purl.obolibrary.org/obo/SO_0001162)
# File lib/biointerchange/so.rb, line 7243 def self.MTE return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001162') end
A non-translated 93 nt antisense RNA
that binds its target ompF mRNA and regulates ompF expression by inhibiting translation and inducing degradation of the message. (purl.obolibrary.org/obo/SO_0000383)
# File lib/biointerchange/so.rb, line 2613 def self.MicF_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000383') end
N2_2prime_O_dimethylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001329)
# File lib/biointerchange/so.rb, line 8239 def self.N2_2_prime_O_dimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001329') end
N2_7_2prirme_O_trimethylguanosine
is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001343)
# File lib/biointerchange/so.rb, line 8323 def self.N2_7_2prirme_O_trimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001343') end
N2_7_dimethylguanosine
is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001338)
# File lib/biointerchange/so.rb, line 8293 def self.N2_7_dimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001338') end
N2_N2_2prime_O_trimethylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001330)
# File lib/biointerchange/so.rb, line 8245 def self.N2_N2_2_prime_O_trimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001330') end
N2_N2_7_trimethylguanosine
is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001339)
# File lib/biointerchange/so.rb, line 8299 def self.N2_N2_7_trimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001339') end
N2_N2_dimethylguanosine
is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001328)
# File lib/biointerchange/so.rb, line 8233 def self.N2_N2_dimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001328') end
N2_methylguanosine
is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001325)
# File lib/biointerchange/so.rb, line 8215 def self.N2_methylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001325') end
N4,2’-O-dimethylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001291)
# File lib/biointerchange/so.rb, line 8011 def self.N4_2_prime_O_dimethylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001291') end
N4_N4_2_prime_O_trimethylcytidine
is a modified cytidine. (purl.obolibrary.org/obo/SO_0001294)
# File lib/biointerchange/so.rb, line 8029 def self.N4_N4_2_prime_O_trimethylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001294') end
N4-acetyl-2’-O-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001288)
# File lib/biointerchange/so.rb, line 7993 def self.N4_acetyl_2_prime_O_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001288') end
N4-acetylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001285)
# File lib/biointerchange/so.rb, line 7975 def self.N4_acetylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001285') end
N4-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001290)
# File lib/biointerchange/so.rb, line 8005 def self.N4_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001290') end
N6_2prime_O_dimethyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001312)
# File lib/biointerchange/so.rb, line 8137 def self.N6_2_prime_O_dimethyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001312') end
N6_N6_2prime_O_trimethyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001313)
# File lib/biointerchange/so.rb, line 8143 def self.N6_N6_2_prime_O_trimethyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001313') end
N6_N6_dimethyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001311)
# File lib/biointerchange/so.rb, line 8131 def self.N6_N6_dimethyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001311') end
N6_acetyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001315)
# File lib/biointerchange/so.rb, line 8155 def self.N6_acetyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001315') end
N6_cis_hydroxyisopentenyl_adenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001302)
# File lib/biointerchange/so.rb, line 8077 def self.N6_cis_hydroxyisopentenyl_adenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001302') end
N6_glycinylcarbamoyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001304)
# File lib/biointerchange/so.rb, line 8089 def self.N6_glycinylcarbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001304') end
N6_hydroxynorvalylcarbamoyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001308)
# File lib/biointerchange/so.rb, line 8113 def self.N6_hydroxynorvalylcarbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001308') end
N6_isopentenyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001300)
# File lib/biointerchange/so.rb, line 8065 def self.N6_isopentenyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001300') end
N6_methyl_N6_threonylcarbamoyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001307)
# File lib/biointerchange/so.rb, line 8107 def self.N6_methyl_N6_threonylcarbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001307') end
An adenine methylated at the 6 nitrogen. (purl.obolibrary.org/obo/SO_0001920)
# File lib/biointerchange/so.rb, line 11725 def self.N6_methyladenine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001920') end
N6_methyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001297)
# File lib/biointerchange/so.rb, line 8047 def self.N6_methyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001297') end
N6_threonylcarbamoyladenosine
is a modified adenosine. (purl.obolibrary.org/obo/SO_0001305)
# File lib/biointerchange/so.rb, line 8095 def self.N6_threonylcarbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001305') end
A non directional promoter motif with consensus CGMYGYCR. (purl.obolibrary.org/obo/SO_0001167)
# File lib/biointerchange/so.rb, line 7273 def self.NDM2_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001167') end
A non directional promoter motif with consensus sequence GAAAGCT. (purl.obolibrary.org/obo/SO_0001168)
# File lib/biointerchange/so.rb, line 7279 def self.NDM3_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001168') end
A variant in a transcript that is the target of NMD. (purl.obolibrary.org/obo/SO_0001621)
# File lib/biointerchange/so.rb, line 9967 def self.NMD_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001621') end
Extra nucleotides inserted between rearranged immunoglobulin segments. (purl.obolibrary.org/obo/SO_0001835)
# File lib/biointerchange/so.rb, line 11215 def self.N_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001835') end
The in-frame interval between the stop codons of a reading frame which when read as sequential triplets, has the potential of encoding a sequential string of amino acids. TER(NNN)nTER. (purl.obolibrary.org/obo/SO_0000236)
# File lib/biointerchange/so.rb, line 1737 def self.ORF return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000236') end
Any of the DNA
segments produced by discontinuous synthesis of the lagging strand during DNA
replication. (purl.obolibrary.org/obo/SO_0001985)
# File lib/biointerchange/so.rb, line 12113 def self.Okazaki_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001985') end
A small untranslated RNA
which is induced in response to oxidative stress in Escherichia coli. Acts as a global regulator to activate or repress the expression of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA
polymerase. OxyS is bound by the Hfq protein, that increases the OxyS RNA
interaction with its target messages. (purl.obolibrary.org/obo/SO_0000384)
# File lib/biointerchange/so.rb, line 2619 def self.OxyS_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000384') end
The P1-derived artificial chromosome are DNA
constructs that are derived from the DNA
of P1 bacteriophage. They can carry large amounts (about 100-300 kilobases) of other sequences for a variety of bioengineering purposes. It is one type of vector used to clone DNA
fragments (100- to 300-kb insert size; average, 150 kb) in Escherichia coli cells. (purl.obolibrary.org/obo/SO_0000154)
# File lib/biointerchange/so.rb, line 1241 def self.PAC return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000154') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000762)
# File lib/biointerchange/so.rb, line 4895 def self.PAC_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000762') end
A region of sequence from the end of a PAC
clone that may provide a highly specific marker. (purl.obolibrary.org/obo/SO_0001480)
# File lib/biointerchange/so.rb, line 9139 def self.PAC_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001480') end
A promoter element with consensus sequence GNAACR, bound by the transcription factor complex PBF (PCB-binding factor) and found in promoters of genes expressed during the M/G1 transition of the cell cycle. (purl.obolibrary.org/obo/SO_0001871)
# File lib/biointerchange/so.rb, line 11431 def self.PCB return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001871') end
A region amplified by a PCR reaction. (purl.obolibrary.org/obo/SO_0000006)
# File lib/biointerchange/so.rb, line 351 def self.PCR_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000006') end
A polypeptide region that mediates binding to PCNA. The consensus sequence is QXX(hh)XX(aa), where (h) denotes residues with moderately hydrophobic side chains and (a) denotes residues with highly hydrophobic aromatic side chains. (purl.obolibrary.org/obo/SO_0001810)
# File lib/biointerchange/so.rb, line 11065 def self.PIP_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001810') end
An attribute describing a sequence composed of peptide nucleic acid (CHEBI:48021), a chemical consisting of nucleobases bound to a backbone composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds. (purl.obolibrary.org/obo/SO_0001184)
# File lib/biointerchange/so.rb, line 7375 def self.PNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001184') end
Peptide nucleic acid, is a chemical not known to occur naturally but is artificially synthesized and used in some biological research and medical treatments. The PNA
backbone is composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds. (purl.obolibrary.org/obo/SO_0001011)
# File lib/biointerchange/so.rb, line 6341 def self.PNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001011') end
A sequence element characteristic of the promoters of snRNA genes transcribed by RNA
polymerase II or by RNA
polymerase III. Located between -45 and -60 relative to the TSS
. The human PSE_motif
consensus sequence is TCACCNTNA(C|G)TNAAAAG(T|G). (purl.obolibrary.org/obo/SO_0000017)
# File lib/biointerchange/so.rb, line 417 def self.PSE_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000017') end
A region (DNA
) to which Bacteriophage RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0001204)
# File lib/biointerchange/so.rb, line 7495 def self.Phage_RNA_Polymerase_Promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001204') end
A quantitative trait locus (QTL
) is a polymorphic locus which contains alleles that differentially affect the expression of a continuously distributed phenotypic trait. Usually it is a marker described by statistical association to quantitative variation in the particular phenotypic trait that is thought to be controlled by the cumulative action of alleles at multiple loci. (purl.obolibrary.org/obo/SO_0000771)
# File lib/biointerchange/so.rb, line 4943 def self.QTL return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000771') end
RAPD
is a ‘PCR product’ where a sequence variant is identified through the use of PCR with random primers. (purl.obolibrary.org/obo/SO_0001481)
# File lib/biointerchange/so.rb, line 9145 def self.RAPD return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001481') end
A DNA
fragment used as a reagent to detect the polymorphic genomic loci by hybridizing against the genomic DNA
digested with a given restriction enzyme. (purl.obolibrary.org/obo/SO_0000193)
# File lib/biointerchange/so.rb, line 1479 def self.RFLP_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000193') end
A radiation hybrid map is a physical map. (purl.obolibrary.org/obo/SO_0001252)
# File lib/biointerchange/so.rb, line 7777 def self.RH_map return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001252') end
An attribute describing a sequence consisting of nucleobases bound to a repeating unit made of a D-ribose ring connected to a phosphate backbone. (purl.obolibrary.org/obo/SO_0000356)
# File lib/biointerchange/so.rb, line 2457 def self.RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000356') end
A small (184-nt in E. coli) RNA
that forms a hairpin type structure. 6S RNA
associates with RNA
polymerase in a highly specific manner. 6S RNA
represses expression from a sigma70-dependent promoter during stationary phase. (purl.obolibrary.org/obo/SO_0000376)
# File lib/biointerchange/so.rb, line 2571 def self.RNA_6S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000376') end
RNA
molecules that have been selected from random pools based on their ability to bind other molecules. (purl.obolibrary.org/obo/SO_0000033)
# File lib/biointerchange/so.rb, line 507 def self.RNA_aptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000033') end
Structural unit composed of a self-replicating, RNA
molecule. (purl.obolibrary.org/obo/SO_0000961)
# File lib/biointerchange/so.rb, line 6047 def self.RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000961') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000027)
# File lib/biointerchange/so.rb, line 471 def self.RNA_hook_turn return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000027') end
A region of double stranded RNA
where the bases do not conform to WC base pairing. The loop is closed on both sides by canonical base pairing. If the interruption to base pairing occurs on one strand only, it is known as a bulge. (purl.obolibrary.org/obo/SO_0000020)
# File lib/biointerchange/so.rb, line 429 def self.RNA_internal_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000020') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000026)
# File lib/biointerchange/so.rb, line 465 def self.RNA_junction_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000026') end
A motif that is active in RNA
sequence. (purl.obolibrary.org/obo/SO_0000715)
# File lib/biointerchange/so.rb, line 4613 def self.RNA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000715') end
A TATA box core promoter of a gene transcribed by RNA
polymerase III. (purl.obolibrary.org/obo/SO_0001662)
# File lib/biointerchange/so.rb, line 10183 def self.RNA_polymerase_III_TATA_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001662') end
A TATA box core promoter of a gene transcribed by RNA
polymerase II. (purl.obolibrary.org/obo/SO_0001661)
# File lib/biointerchange/so.rb, line 10177 def self.RNA_polymerase_II_TATA_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001661') end
A region (DNA
) to which RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0001203)
# File lib/biointerchange/so.rb, line 7489 def self.RNA_polymerase_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001203') end
This has been obsoleted as it represents a process. replaced_by: GO:0034961. (purl.obolibrary.org/obo/SO_0000972)
# File lib/biointerchange/so.rb, line 6113 def self.RNA_replication_mode return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000972') end
A folded RNA
sequence. (purl.obolibrary.org/obo/SO_0000122)
# File lib/biointerchange/so.rb, line 1049 def self.RNA_sequence_secondary_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000122') end
Either:
RNA secondary structure that affects the stability of an RNA molecule. (http://purl.obolibrary.org/obo/SO_0001957)
Or:
A motif that affects the stability of RNA. (http://purl.obolibrary.org/obo/SO_0001979)
# File lib/biointerchange/so.rb, line 11951 def self.RNA_stability_element return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001957'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001979') ] end
A double stranded RNA
duplex, at least 20bp long, used experimentally to inhibit gene function by RNA
interference. (purl.obolibrary.org/obo/SO_0000337)
# File lib/biointerchange/so.rb, line 2343 def self.RNAi_reagent return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000337') end
A DNA
sequence in eukaryotic DNA
to which RNA
polymerase III binds, to begin transcription. (purl.obolibrary.org/obo/SO_0000171)
# File lib/biointerchange/so.rb, line 1343 def self.RNApol_III_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000171') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000617)
# File lib/biointerchange/so.rb, line 4025 def self.RNApol_III_promoter_type_1 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000617') end
A region of sequence which is a promoter for RNA
polymerase III type 1. (purl.obolibrary.org/obo/SO_0000845)
# File lib/biointerchange/so.rb, line 5351 def self.RNApol_III_promoter_type_1_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000845') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000618)
# File lib/biointerchange/so.rb, line 4031 def self.RNApol_III_promoter_type_2 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000618') end
A region of sequence which is a promoter for RNA
polymerase III type 2. (purl.obolibrary.org/obo/SO_0000846)
# File lib/biointerchange/so.rb, line 5357 def self.RNApol_III_promoter_type_2_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000846') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000621)
# File lib/biointerchange/so.rb, line 4049 def self.RNApol_III_promoter_type_3 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000621') end
The minimal portion of the promoter required to properly initiate transcription in RNA
polymerase II transcribed genes. (purl.obolibrary.org/obo/SO_0001669)
# File lib/biointerchange/so.rb, line 10225 def self.RNApol_II_core_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001669') end
A DNA
sequence in eukaryotic DNA
to which RNA
polymerase II binds, to begin transcription. (purl.obolibrary.org/obo/SO_0000170)
# File lib/biointerchange/so.rb, line 1337 def self.RNApol_II_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000170') end
A region of sequence which is a promoter for RNA
polymerase II. (purl.obolibrary.org/obo/SO_0000844)
# File lib/biointerchange/so.rb, line 5345 def self.RNApol_II_promoter_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000844') end
A DNA
sequence in eukaryotic DNA
to which RNA
polymerase I binds, to begin transcription. (purl.obolibrary.org/obo/SO_0000169)
# File lib/biointerchange/so.rb, line 1331 def self.RNApol_I_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000169') end
The RNA
molecule essential for the catalytic activity of RNase MRP, an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA
replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs. (purl.obolibrary.org/obo/SO_0000385)
# File lib/biointerchange/so.rb, line 2625 def self.RNase_MRP_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000385') end
A gene that encodes a RNase_MRP_RNA
. (purl.obolibrary.org/obo/SO_0001640)
# File lib/biointerchange/so.rb, line 10075 def self.RNase_MRP_RNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001640') end
The RNA
component of Ribonuclease P (RNase P), a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterized activity is the generation of mature 5 prime ends of tRNAs by cleaving the 5 prime leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA
from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA
has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA
cores from all the three lineages are homologous. Helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs. (purl.obolibrary.org/obo/SO_0000386)
# File lib/biointerchange/so.rb, line 2631 def self.RNase_P_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000386') end
A gene that encodes an RNase P RNA
. (purl.obolibrary.org/obo/SO_0001639)
# File lib/biointerchange/so.rb, line 10069 def self.RNase_P_RNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001639') end
The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins. (purl.obolibrary.org/obo/SO_0000388)
# File lib/biointerchange/so.rb, line 2643 def self.RRE_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000388') end
A polypurine tract within an LTR_retrotransposon
. (purl.obolibrary.org/obo/SO_0000435)
# File lib/biointerchange/so.rb, line 2925 def self.RR_tract return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000435') end
A tag produced from a single sequencing read from a RACE product; typically a few hundred base pairs long. (purl.obolibrary.org/obo/SO_0001467)
# File lib/biointerchange/so.rb, line 9061 def self.RST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001467') end
A match against an RST
sequence. (purl.obolibrary.org/obo/SO_0001471)
# File lib/biointerchange/so.rb, line 9085 def self.RST_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001471') end
An attribute describing a GNA
sequence in the ®-GNA enantiomer. (purl.obolibrary.org/obo/SO_0001194)
# File lib/biointerchange/so.rb, line 7435 def self.R_GNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001194') end
An oligo composed of ®-GNA residues. (purl.obolibrary.org/obo/SO_0001195)
# File lib/biointerchange/so.rb, line 7441 def self.R_GNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001195') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000423)
# File lib/biointerchange/so.rb, line 2853 def self.R_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000423') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000427)
# File lib/biointerchange/so.rb, line 2877 def self.R_five_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000427') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000430)
# File lib/biointerchange/so.rb, line 2895 def self.R_three_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000430') end
A non reciprocal translocation whereby the participating chromosomes break at their centromeres and the long arms fuse to form a single chromosome with a single centromere. (purl.obolibrary.org/obo/SO_1000043)
# File lib/biointerchange/so.rb, line 12689 def self.Robertsonian_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000043') end
Translational regulation of the stationary phase sigma factor RpoS is mediated by the formation of a double-stranded RNA
stem-loop structure in the upstream region of the rpoS messenger RNA
, occluding the translation initiation site. Clones carrying rprA (RpoS regulator RNA
) increased the translation of RpoS. The rprA gene encodes a 106 nucleotide regulatory RNA
. As with DsrA Rfam:RF00014, RprA is predicted to form three stem-loops. Thus, at least two small RNAs, DsrA and RprA, participate in the positive regulation of RpoS translation. Unlike DsrA, RprA does not have an extensive region of complementarity to the RpoS leader, leaving its mechanism of action unclear. RprA is non-essential. (purl.obolibrary.org/obo/SO_0000387)
# File lib/biointerchange/so.rb, line 2637 def self.RprA_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000387') end
A short diagnostic sequence tag, serial analysis of gene expression (SAGE), that allows the quantitative and simultaneous analysis of a large number of transcripts. (purl.obolibrary.org/obo/SO_0000326)
# File lib/biointerchange/so.rb, line 2277 def self.SAGE_tag return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000326') end
The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3’ UTR
that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes. (purl.obolibrary.org/obo/SO_1001274)
# File lib/biointerchange/so.rb, line 13589 def self.SECIS_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001274') end
A repetitive element, a few hundred base pairs long, that is dispersed throughout the genome. A common human SINE is the Alu element. (purl.obolibrary.org/obo/SO_0000206)
# File lib/biointerchange/so.rb, line 1557 def self.SINE_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000206') end
A SL2_acceptor_site
which appends the SL10 RNA
leader sequence to the 5’ end of an mRNA. SL10 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001755)
# File lib/biointerchange/so.rb, line 10741 def self.SL10_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001755') end
A SL2_acceptor_site
which appends the SL11 RNA
leader sequence to the 5’ end of an mRNA. SL11 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001756)
# File lib/biointerchange/so.rb, line 10747 def self.SL11_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001756') end
A SL2_acceptor_site
which appends the SL12 RNA
leader sequence to the 5’ end of an mRNA. SL12 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001757)
# File lib/biointerchange/so.rb, line 10753 def self.SL12_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001757') end
A trans_splicing_acceptor_site which appends the 22nt SL1 RNA
leader sequence to the 5’ end of most mRNAs. (purl.obolibrary.org/obo/SO_0000708)
# File lib/biointerchange/so.rb, line 4571 def self.SL1_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000708') end
A trans_splicing_acceptor_site which appends the 22nt SL2 RNA
leader sequence to the 5’ end of mRNAs. SL2 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0000709)
# File lib/biointerchange/so.rb, line 4577 def self.SL2_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000709') end
A SL2_acceptor_site
which appends the SL3 RNA
leader sequence to the 5’ end of an mRNA. SL3 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001748)
# File lib/biointerchange/so.rb, line 10699 def self.SL3_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001748') end
A SL2_acceptor_site
which appends the SL4 RNA
leader sequence to the 5’ end of an mRNA. SL4 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001749)
# File lib/biointerchange/so.rb, line 10705 def self.SL4_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001749') end
A SL2_acceptor_site
which appends the SL5 RNA
leader sequence to the 5’ end of an mRNA. SL5 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001750)
# File lib/biointerchange/so.rb, line 10711 def self.SL5_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001750') end
A SL2_acceptor_site
which appends the SL6 RNA
leader sequence to the 5’ end of an mRNA. SL6 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001751)
# File lib/biointerchange/so.rb, line 10717 def self.SL6_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001751') end
A SL2_acceptor_site
which appends the SL7 RNA
leader sequence to the 5’ end of an mRNA. SL7 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001752)
# File lib/biointerchange/so.rb, line 10723 def self.SL7_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001752') end
A SL2_acceptor_site
which appends the SL8 RNA
leader sequence to the 5’ end of an mRNA. SL8 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001753)
# File lib/biointerchange/so.rb, line 10729 def self.SL8_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001753') end
A SL2_acceptor_site
which appends the SL9 RNA
leader sequence to the 5’ end of an mRNA. SL9 acceptor sites occur in genes in internal segments of polycistronic transcripts. (purl.obolibrary.org/obo/SO_0001754)
# File lib/biointerchange/so.rb, line 10735 def self.SL9_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001754') end
SNPs are single base pair positions in genomic DNA
at which different sequence alternatives exist in normal individuals in some population(s), wherein the least frequent variant has an abundance of 1% or greater. (purl.obolibrary.org/obo/SO_0000694)
# File lib/biointerchange/so.rb, line 4487 def self.SNP return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000694') end
SNVs are single nucleotide positions in genomic DNA
at which different sequence alternatives exist. (purl.obolibrary.org/obo/SO_0001483)
# File lib/biointerchange/so.rb, line 9157 def self.SNV return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001483') end
A region (DNA
) to which the SP6 RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0001205)
# File lib/biointerchange/so.rb, line 7501 def self.SP6_RNA_Polymerase_Promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001205') end
The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA
and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA
and homologues of the eukaryotic SRP19 and SRP54 proteins. In most eubacteria, the SRP consists of a 4.5S RNA
and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Eukaryotic and archaeal 7S RNAs have very similar secondary structures, with eight helical elements. These fold into the Alu and S domains, separated by a long linker region. Eubacterial SRP is generally a simpler structure, with the M domain of Ffh bound to a region of the 4.5S RNA
that corresponds to helix 8 of the eukaryotic and archaeal SRP S domain. Some Gram-positive bacteria (e.g. Bacillus subtilis), however, have a larger SRP RNA
that also has an Alu domain. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP. The universally conserved helix which interacts with the SRP54/Ffh M domain mediates signal sequence recognition. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilizes helix 8 for SRP54 binding. (purl.obolibrary.org/obo/SO_0000590)
# File lib/biointerchange/so.rb, line 3863 def self.SRP_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000590') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000642)
# File lib/biointerchange/so.rb, line 4175 def self.SRP_RNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000642') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001269)
# File lib/biointerchange/so.rb, line 7879 def self.SRP_RNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001269') end
A primary transcript encoding a signal recognition particle RNA
. (purl.obolibrary.org/obo/SO_0000589)
# File lib/biointerchange/so.rb, line 3857 def self.SRP_RNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000589') end
A promoter element with consensus sequence CCCCTC, bound by the PKA-responsive zinc finger transcription factor Rst2. (purl.obolibrary.org/obo/SO_0001859)
# File lib/biointerchange/so.rb, line 11359 def self.STREP_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001859') end
Short (typically a few hundred base pairs) DNA
sequence that has a single occurrence in a genome and whose location and base sequence are known. (purl.obolibrary.org/obo/SO_0000331)
# File lib/biointerchange/so.rb, line 2307 def self.STS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000331') end
An STS
map is a physical map organized by the unique STS
landmarks. (purl.obolibrary.org/obo/SO_0001251)
# File lib/biointerchange/so.rb, line 7771 def self.STS_map return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001251') end
An attribute describing a GNA
sequence in the (S)-GNA enantiomer. (purl.obolibrary.org/obo/SO_0001196)
# File lib/biointerchange/so.rb, line 7447 def self.S_GNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001196') end
An oligo composed of (S)-GNA residues. (purl.obolibrary.org/obo/SO_0001197)
# File lib/biointerchange/so.rb, line 7453 def self.S_GNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001197') end
The switch region of immunoglobulin heavy chains; it is involved in the rearrangement of heavy chain DNA
leading to the expression of a different immunoglobulin classes from the same B-cell. (purl.obolibrary.org/obo/SO_0001836)
# File lib/biointerchange/so.rb, line 11221 def self.S_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001836') end
A DNA
motif to which the S. pombe Sap1 protein binds. The consensus sequence is 5’-TARGCAGNTNYAACGMG-3’; it is found at the mating type locus, where it is important for mating type switching, and at replication fork barriers in rDNA repeats. (purl.obolibrary.org/obo/SO_0001864)
# File lib/biointerchange/so.rb, line 11389 def self.Sap1_recognition_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001864') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000000)
# File lib/biointerchange/so.rb, line 315 def self.Sequence_Ontology return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000000') end
A region in the 5’ UTR
that pairs with the 16S rRNA during formation of the preinitiation complex. (purl.obolibrary.org/obo/SO_0000552)
# File lib/biointerchange/so.rb, line 3631 def self.Shine_Dalgarno_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000552') end
A DNA
sequence to which the T3 RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0001206)
# File lib/biointerchange/so.rb, line 7507 def self.T3_RNA_Polymerase_Promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001206') end
A region (DNA
) to which the T7 RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0001207)
# File lib/biointerchange/so.rb, line 7513 def self.T7_RNA_Polymerase_Promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001207') end
A conserved AT-rich septamer found about 25-bp before the start point of many eukaryotic RNA
polymerase II transcript units; may be involved in positioning the enzyme for correct initiation; consensus=TATA(A|T)A(A|T). (purl.obolibrary.org/obo/SO_0000174)
# File lib/biointerchange/so.rb, line 1361 def self.TATA_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000174') end
A cis-regulatory element, conserved sequence YYC+1TTTYY, and spans -2 to +6 relative to +1 TSS
. It is present in most ribosomal protein genes in Drosophila and mammals but not in the yeast Saccharomyces cerevisiae. Resembles the initiator (TCAKTY in Drosophila) but functionally distinct from initiator. (purl.obolibrary.org/obo/SO_0001959)
# File lib/biointerchange/so.rb, line 11963 def self.TCT_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001959') end
A non-coding RNA
transcript, derived from the transcription of the telomere. These transcripts contain G rich telomeric RNA
repeats and RNA
tracts corresponding to adjacent subtelomeric sequences. They are 100-9000 bases long. (purl.obolibrary.org/obo/SO_0001923)
# File lib/biointerchange/so.rb, line 11743 def self.TERRA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001923') end
A feature ablation whereby the deleted region includes a transcription factor binding site. (purl.obolibrary.org/obo/SO_0001895)
# File lib/biointerchange/so.rb, line 11575 def self.TFBS_ablation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001895') end
A feature amplification of a region containing a transcription factor binding site. (purl.obolibrary.org/obo/SO_0001892)
# File lib/biointerchange/so.rb, line 11557 def self.TFBS_amplification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001892') end
A fusion where the deletion brings together transcription factor binding sites. (purl.obolibrary.org/obo/SO_0001888)
# File lib/biointerchange/so.rb, line 11533 def self.TFBS_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001888') end
A feature translocation where the region contains a transcription factor binding site. (purl.obolibrary.org/obo/SO_0001885)
# File lib/biointerchange/so.rb, line 11515 def self.TFBS_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001885') end
A region of a nucleotide molecule that binds a Transcription Factor or Transcription Factor complex [GO:0005667]. (purl.obolibrary.org/obo/SO_0000235)
# File lib/biointerchange/so.rb, line 1731 def self.TF_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000235') end
A sequence variant located within a transcription factor binding site. (purl.obolibrary.org/obo/SO_0001782)
# File lib/biointerchange/so.rb, line 10903 def self.TF_binding_site_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001782') end
An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of threose rings connected to a phosphate backbone. (purl.obolibrary.org/obo/SO_0001190)
# File lib/biointerchange/so.rb, line 7411 def self.TNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001190') end
An oligo composed of TNA
residues. (purl.obolibrary.org/obo/SO_0001191)
# File lib/biointerchange/so.rb, line 7417 def self.TNA_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001191') end
A promoter element with consensus sequence TTCTTTGTTY, bound an HMG-box transcription factor such as S. pombe Ste11, and found in promoters of genes up-regulated early in meiosis. (purl.obolibrary.org/obo/SO_0001858)
# File lib/biointerchange/so.rb, line 11353 def self.TR_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001858') end
The first base where RNA
polymerase begins to synthesize the RNA
transcript. (purl.obolibrary.org/obo/SO_0000315)
# File lib/biointerchange/so.rb, line 2211 def self.TSS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000315') end
The region of a gene from the 5’ most TSS
to the 3’ TSS
. (purl.obolibrary.org/obo/SO_0001240)
# File lib/biointerchange/so.rb, line 7711 def self.TSS_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001240') end
Non-base-paired sequence of three nucleotide bases in tRNA. It has sequence T-Psi-C. (purl.obolibrary.org/obo/SO_0001177)
# File lib/biointerchange/so.rb, line 7333 def self.T_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001177') end
A transversion from T to A. (purl.obolibrary.org/obo/SO_1000021)
# File lib/biointerchange/so.rb, line 12569 def self.T_to_A_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000021') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000013)
# File lib/biointerchange/so.rb, line 12521 def self.T_to_C_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000013') end
A transversion from T to G. (purl.obolibrary.org/obo/SO_1000022)
# File lib/biointerchange/so.rb, line 12575 def self.T_to_G_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000022') end
U11 snRNA plays a role in splicing of the minor U12-dependent class of eukaryotic nuclear introns, similar to U1 snRNA in the major class spliceosome it base pairs to the conserved 5’ splice site sequence. (purl.obolibrary.org/obo/SO_0000398)
# File lib/biointerchange/so.rb, line 2703 def self.U11_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000398') end
A type of spliceosomal intron spliced by the U12 spliceosome, that includes U11, U12, U4atac/U6atac and U5 snRNAs. (purl.obolibrary.org/obo/SO_0000295)
# File lib/biointerchange/so.rb, line 2091 def self.U12_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000295') end
The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns. (purl.obolibrary.org/obo/SO_0000399)
# File lib/biointerchange/so.rb, line 2709 def self.U12_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000399') end
U14 small nucleolar RNA
(U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates. (purl.obolibrary.org/obo/SO_0000403)
# File lib/biointerchange/so.rb, line 2733 def self.U14_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000403') end
The primary transcript of an evolutionarily conserved eukaryotic low molecular weight RNA
capable of intermolecular hybridization with both homologous and heterologous 18S rRNA. (purl.obolibrary.org/obo/SO_0005837)
# File lib/biointerchange/so.rb, line 12257 def self.U14_snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005837') end
U1 is a small nuclear RNA
(snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5’ end forms complementary base pairs with the 5’ splice junction, thus defining the 5’ donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a ‘common core’ consisting of helices I, II, the proximal region of III, and IV. (purl.obolibrary.org/obo/SO_0000391)
# File lib/biointerchange/so.rb, line 2661 def self.U1_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000391') end
A major type of spliceosomal intron spliced by the U2 spliceosome, that includes U1, U2, U4/U6 and U5 snRNAs. (purl.obolibrary.org/obo/SO_0000184)
# File lib/biointerchange/so.rb, line 1425 def self.U2_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000184') end
U2 is a small nuclear RNA
(snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5’ end but 3’ to hairpin I) and the branchpoint sequence (BPS) of the intron results in the bulging out of an unpaired adenine, on the BPS, which initiates a nucleophilic attack at the intronic 5’ splice site, thus starting the first of two transesterification reactions that mediate splicing. (purl.obolibrary.org/obo/SO_0000392)
# File lib/biointerchange/so.rb, line 2667 def self.U2_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000392') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000424)
# File lib/biointerchange/so.rb, line 2859 def self.U3_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000424') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000429)
# File lib/biointerchange/so.rb, line 2889 def self.U3_five_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000429') end
U3 snoRNA is a member of the box C/D class of small nucleolar RNAs. The U3 snoRNA secondary structure is characterised by a small 5’ domain (with boxes A and A’), and a larger 3’ domain (with boxes B, C, C’, and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C’ and D form the C’/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5’ domain and the hinge region act as a pre-rRNA-binding domain. The 3’ domain has conserved protein-binding sites. Both the box B/C and box C’/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C’/D motif is also necessary for nucleolar localization, stability and hypermethylation of U3 snoRNA. Both box B/C and C’/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA. (purl.obolibrary.org/obo/SO_0001179)
# File lib/biointerchange/so.rb, line 7345 def self.U3_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001179') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000431)
# File lib/biointerchange/so.rb, line 2901 def self.U3_three_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000431') end
U4 small nuclear RNA
(U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6. (purl.obolibrary.org/obo/SO_0000393)
# File lib/biointerchange/so.rb, line 2673 def self.U4_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000393') end
An snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U6atac_snRNA
(SO:0000397). (purl.obolibrary.org/obo/SO_0000394)
# File lib/biointerchange/so.rb, line 2679 def self.U4atac_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000394') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000422)
# File lib/biointerchange/so.rb, line 2847 def self.U5_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000422') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000428)
# File lib/biointerchange/so.rb, line 2883 def self.U5_five_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000428') end
U5 RNA
is a component of both types of known spliceosome. The precise function of this molecule is unknown, though it is known that the 5’ loop is required for splice site selection and p220 binding, and that both the 3’ stem-loop and the Sm site are important for Sm protein binding and cap methylation. (purl.obolibrary.org/obo/SO_0000395)
# File lib/biointerchange/so.rb, line 2685 def self.U5_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000395') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000432)
# File lib/biointerchange/so.rb, line 2907 def self.U5_three_prime_LTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000432') end
U6 snRNA is a component of the spliceosome which is involved in splicing pre-mRNA. The putative secondary structure consensus base pairing is confined to a short 5’ stem loop, but U6 snRNA is thought to form extensive base-pair interactions with U4 snRNA. (purl.obolibrary.org/obo/SO_0000396)
# File lib/biointerchange/so.rb, line 2691 def self.U6_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000396') end
U6atac_snRNA
is an snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U4atac_snRNA
(SO:0000394). (purl.obolibrary.org/obo/SO_0000397)
# File lib/biointerchange/so.rb, line 2697 def self.U6atac_snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000397') end
A stop codon signal for a UAA stop codon redefinition. (purl.obolibrary.org/obo/SO_1001283)
# File lib/biointerchange/so.rb, line 13631 def self.UAA_stop_codon_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001283') end
A stop codon signal for a UAG stop codon redefinition. (purl.obolibrary.org/obo/SO_1001282)
# File lib/biointerchange/so.rb, line 13625 def self.UAG_stop_codon_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001282') end
A stop codon signal for a UGA stop codon redefinition. (purl.obolibrary.org/obo/SO_1001285)
# File lib/biointerchange/so.rb, line 13643 def self.UGA_stop_codon_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001285') end
Uniparental disomy is a sequence_alteration
where a diploid individual receives two copies for all or part of a chromosome from one parent and no copies of the same chromosome or region from the other parent. (purl.obolibrary.org/obo/SO_0001744)
# File lib/biointerchange/so.rb, line 10675 def self.UPD return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001744') end
An EST
spanning part or all of the untranslated regions of a protein-coding transcript. (purl.obolibrary.org/obo/SO_0001464)
# File lib/biointerchange/so.rb, line 9043 def self.UST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001464') end
A match against an UST
sequence. (purl.obolibrary.org/obo/SO_0001470)
# File lib/biointerchange/so.rb, line 9079 def self.UST_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001470') end
Messenger RNA
sequences that are untranslated and lie five prime or three prime to sequences which are translated. (purl.obolibrary.org/obo/SO_0000203)
# File lib/biointerchange/so.rb, line 1539 def self.UTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000203') end
Intron located in the untranslated region. (purl.obolibrary.org/obo/SO_0000446)
# File lib/biointerchange/so.rb, line 2995 def self.UTR_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000446') end
A region of UTR
. (purl.obolibrary.org/obo/SO_0000837)
# File lib/biointerchange/so.rb, line 5303 def self.UTR_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000837') end
A transcript variant that is located within the UTR
. (purl.obolibrary.org/obo/SO_0001622)
# File lib/biointerchange/so.rb, line 9973 def self.UTR_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001622') end
An U-box is a conserved T-rich region upstream of a retroviral polypurine tract that is involved in PPT primer creation during reverse transcription. (purl.obolibrary.org/obo/SO_0001788)
# File lib/biointerchange/so.rb, line 10933 def self.U_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001788') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000541)
# File lib/biointerchange/so.rb, line 3565 def self.VDJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000541') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000487)
# File lib/biointerchange/so.rb, line 3241 def self.VDJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000487') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000488)
# File lib/biointerchange/so.rb, line 3247 def self.VDJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000488') end
Rearranged genomic DNA
of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-D-J-exon, with the 5’UTR (SO:0000204) and 3’UTR (SO:0000205). (purl.obolibrary.org/obo/SO_0000574)
# File lib/biointerchange/so.rb, line 3767 def self.VDJ_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000574') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA
including L-part1, V-intron and V-D-exon, with the 5’ UTR
(SO:0000204) and 3’ UTR
(SO:0000205). (purl.obolibrary.org/obo/SO_0000510)
# File lib/biointerchange/so.rb, line 3379 def self.VD_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000510') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000489)
# File lib/biointerchange/so.rb, line 3253 def self.VJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000489') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000490)
# File lib/biointerchange/so.rb, line 3259 def self.VJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000490') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000491)
# File lib/biointerchange/so.rb, line 3265 def self.VJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000491') end
Rearranged genomic DNA
of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-J-exon, with the 5’UTR (SO:0000204) and 3’UTR (SO:0000205). (purl.obolibrary.org/obo/SO_0000576)
# File lib/biointerchange/so.rb, line 3779 def self.VJ_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000576') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000542)
# File lib/biointerchange/so.rb, line 3571 def self.V_DJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000542') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000564)
# File lib/biointerchange/so.rb, line 3707 def self.V_DJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000564') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000519)
# File lib/biointerchange/so.rb, line 3433 def self.V_DJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000519') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one DJ-gene. (purl.obolibrary.org/obo/SO_0000518)
# File lib/biointerchange/so.rb, line 3427 def self.V_DJ_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000518') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000527)
# File lib/biointerchange/so.rb, line 3481 def self.V_D_DJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000527') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000529)
# File lib/biointerchange/so.rb, line 3493 def self.V_D_DJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000529') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000530)
# File lib/biointerchange/so.rb, line 3499 def self.V_D_DJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000530') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene. (purl.obolibrary.org/obo/SO_0000528)
# File lib/biointerchange/so.rb, line 3487 def self.V_D_DJ_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000528') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000531)
# File lib/biointerchange/so.rb, line 3505 def self.V_D_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000531') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000532)
# File lib/biointerchange/so.rb, line 3511 def self.V_D_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000532') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000535)
# File lib/biointerchange/so.rb, line 3529 def self.V_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000535') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000534)
# File lib/biointerchange/so.rb, line 3523 def self.V_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000534') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000520)
# File lib/biointerchange/so.rb, line 3439 def self.V_VDJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000520') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000565)
# File lib/biointerchange/so.rb, line 3713 def self.V_VDJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000565') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000522)
# File lib/biointerchange/so.rb, line 3451 def self.V_VDJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000522') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VDJ-gene. (purl.obolibrary.org/obo/SO_0000521)
# File lib/biointerchange/so.rb, line 3445 def self.V_VDJ_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000521') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000523)
# File lib/biointerchange/so.rb, line 3457 def self.V_VJ_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000523') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene, one J-gene and one C-gene. (purl.obolibrary.org/obo/SO_0000566)
# File lib/biointerchange/so.rb, line 3719 def self.V_VJ_J_C_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000566') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one J-gene. (purl.obolibrary.org/obo/SO_0000525)
# File lib/biointerchange/so.rb, line 3469 def self.V_VJ_J_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000525') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VJ-gene. (purl.obolibrary.org/obo/SO_0000524)
# File lib/biointerchange/so.rb, line 3463 def self.V_VJ_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000524') end
Genomic DNA
of immunoglobulin/T-cell receptor gene in germline configuration including more than one V-gene. (purl.obolibrary.org/obo/SO_0000526)
# File lib/biointerchange/so.rb, line 3475 def self.V_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000526') end
Recombination signal including V-heptamer, V-spacer and V-nonamer in 3’ of V-region of a V-gene or V-sequence of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000538)
# File lib/biointerchange/so.rb, line 3547 def self.V_gene_recombination_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000538') end
Germline genomic DNA
including L-part1, V-intron and V-exon, with the 5’ UTR
and 3’ UTR
. (purl.obolibrary.org/obo/SO_0000466)
# File lib/biointerchange/so.rb, line 3115 def self.V_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000466') end
7 nucleotide recombination site (e.g. CACAGTG), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000533)
# File lib/biointerchange/so.rb, line 3517 def self.V_heptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000533') end
9 nucleotide recombination site (e.g. ACAAAAACC), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000536)
# File lib/biointerchange/so.rb, line 3535 def self.V_nonamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000536') end
The variable region of an immunoglobulin polypeptide sequence. (purl.obolibrary.org/obo/SO_0001833)
# File lib/biointerchange/so.rb, line 11203 def self.V_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001833') end
12 or 23 nucleotide spacer between the V-heptamer and the V-nonamer of a V-gene recombination feature of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000537)
# File lib/biointerchange/so.rb, line 3541 def self.V_spacer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000537') end
The canonical base pair, where two bases interact via WC edges, with glycosidic bonds oriented cis relative to the axis of orientation. (purl.obolibrary.org/obo/SO_0000029)
# File lib/biointerchange/so.rb, line 483 def self.WC_base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000029') end
The leftmost segment of homology in the HML and MAT mating loci, but not present in HMR. (purl.obolibrary.org/obo/SO_0002000)
# File lib/biointerchange/so.rb, line 12203 def self.W_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002000') end
The X element is a conserved region, of the telomere, of ~475 bp that contains an ARS
sequence and in most cases an Abf1p binding site. (purl.obolibrary.org/obo/SO_0001497)
# File lib/biointerchange/so.rb, line 9241 def self.X_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001497') end
An X element combinatorial repeat is a repeat region located between the X element and the telomere or adjacent Y’ element. (purl.obolibrary.org/obo/SO_0001484)
# File lib/biointerchange/so.rb, line 9163 def self.X_element_combinatorial_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001484') end
Yeast Artificial Chromosome, a vector constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells. (purl.obolibrary.org/obo/SO_0000152)
# File lib/biointerchange/so.rb, line 1229 def self.YAC return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000152') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000760)
# File lib/biointerchange/so.rb, line 4883 def self.YAC_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000760') end
A region of sequence from the end of a YAC
clone that may provide a highly specific marker. (purl.obolibrary.org/obo/SO_0001498)
# File lib/biointerchange/so.rb, line 9247 def self.YAC_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001498') end
Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA
component can be one of four small RNAs: hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin. (purl.obolibrary.org/obo/SO_0000405)
# File lib/biointerchange/so.rb, line 2745 def self.Y_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000405') end
A Y’ element is a repeat region (SO:0000657) located adjacent to telomeric repeats or X element combinatorial repeats, either as a single copy or tandem repeat of two to four copies. (purl.obolibrary.org/obo/SO_0001485)
# File lib/biointerchange/so.rb, line 9169 def self.Y_prime_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001485') end
A segment of non-homology between a and alpha mating alleles, found at all three mating loci (HML, MAT, and HMR), has two forms (Ya and Yalpha). (purl.obolibrary.org/obo/SO_0002001)
# File lib/biointerchange/so.rb, line 12209 def self.Y_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002001') end
A mating type region motif, one of two segments of homology found at all three mating loci (HML, MAT, and HMR). (purl.obolibrary.org/obo/SO_0002002)
# File lib/biointerchange/so.rb, line 12215 def self.Z1_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002002') end
A mating type region motif, the rightmost segment of homology in the HML and MAT mating loci (not present in HMR). (purl.obolibrary.org/obo/SO_0002003)
# File lib/biointerchange/so.rb, line 12221 def self.Z2_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002003') end
A sequence variant located within 2KB 5’ of a gene. (purl.obolibrary.org/obo/SO_0001636)
# File lib/biointerchange/so.rb, line 10051 def self.a_2KB_upstream_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001636') end
A sequence variant that changes the resulting polypeptide structure. (purl.obolibrary.org/obo/SO_0001599)
# File lib/biointerchange/so.rb, line 9835 def self.a_3D_polypeptide_structure_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001599') end
A UTR
variant of the 3’ UTR
. (purl.obolibrary.org/obo/SO_0001624)
# File lib/biointerchange/so.rb, line 9985 def self.a_3_prime_UTR_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001624') end
A cytosine methylated at the 4 nitrogen. (purl.obolibrary.org/obo/SO_0001919)
# File lib/biointerchange/so.rb, line 11719 def self.a_4_methylcytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001919') end
A sequence variant located within a half KB of the end of a gene. (purl.obolibrary.org/obo/SO_0001634)
# File lib/biointerchange/so.rb, line 10039 def self.a_500B_downstream_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001634') end
A sequence variant located within 5 KB of the end of a gene. (purl.obolibrary.org/obo/SO_0001633)
# File lib/biointerchange/so.rb, line 10033 def self.a_5KB_downstream_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001633') end
A sequence variant located within 5KB 5’ of a gene. (purl.obolibrary.org/obo/SO_0001635)
# File lib/biointerchange/so.rb, line 10045 def self.a_5KB_upstream_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001635') end
A modified DNA
cytosine base feature, modified by a carboxy group at the 5 carbon. (purl.obolibrary.org/obo/SO_0001966)
# File lib/biointerchange/so.rb, line 12005 def self.a_5_carboxylcytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001966') end
A modified DNA
cytosine base feature, modified by a formyl group at the 5 carbon. (purl.obolibrary.org/obo/SO_0001961)
# File lib/biointerchange/so.rb, line 11975 def self.a_5_formylcytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001961') end
A modified DNA
cytosine base feature, modified by a hydroxymethyl group at the 5 carbon. (purl.obolibrary.org/obo/SO_0001960)
# File lib/biointerchange/so.rb, line 11969 def self.a_5_hydroxymethylcytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001960') end
A cytosine methylated at the 5 carbon. (purl.obolibrary.org/obo/SO_0001918)
# File lib/biointerchange/so.rb, line 11713 def self.a_5_methylcytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001918') end
A 5’ UTR
variant where a premature start codon is gained. (purl.obolibrary.org/obo/SO_0001988)
# File lib/biointerchange/so.rb, line 12131 def self.a_5_prime_UTR_premature_start_codon_gain_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001988') end
A 5’ UTR
variant where a premature start codon is lost. (purl.obolibrary.org/obo/SO_0001989)
# File lib/biointerchange/so.rb, line 12137 def self.a_5_prime_UTR_premature_start_codon_loss_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001989') end
A 5’ UTR
variant where a premature start codon is introduced, moved or lost. (purl.obolibrary.org/obo/SO_0001983)
# File lib/biointerchange/so.rb, line 12101 def self.a_5_prime_UTR_premature_start_codon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001983') end
A UTR
variant of the 5’ UTR
. (purl.obolibrary.org/obo/SO_0001623)
# File lib/biointerchange/so.rb, line 9979 def self.a_5_prime_UTR_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001623') end
A modified DNA
adenine base,at the 8 carbon, often the product of DNA
damage. (purl.obolibrary.org/obo/SO_0001967)
# File lib/biointerchange/so.rb, line 12011 def self.a_8_oxoadenine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001967') end
A modified DNA
guanine base,at the 8 carbon, often the product of DNA
damage. (purl.obolibrary.org/obo/SO_0001965)
# File lib/biointerchange/so.rb, line 11999 def self.a_8_oxoguanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001965') end
A transcript that has been processed "incorrectly", for example by the failure of splicing of one or more exons. (SO:ke) (purl.obolibrary.org/obo/SO_0000681)
# File lib/biointerchange/so.rb, line 4409 def self.aberrant_processed_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000681') end
Active peptides are proteins which are biologically active, released from a precursor molecule. (purl.obolibrary.org/obo/SO_0001064)
# File lib/biointerchange/so.rb, line 6667 def self.active_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001064') end
An adaptive island is a genomic island that provides an adaptive advantage to the host. (purl.obolibrary.org/obo/SO_0000775)
# File lib/biointerchange/so.rb, line 4967 def self.adaptive_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000775') end
A geometric operator, specified in Egenhofer 1989. Two features meet if they share a junction on the sequence. X adjacent_to
Y iff X and Y share a boundary but do not overlap. (purl.obolibrary.org/obo/so_2_5_2.obo#adjacent_to)
# File lib/biointerchange/so.rb, line 17 def self.adjacent_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#adjacent_to') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001435)
# File lib/biointerchange/so.rb, line 8869 def self.alanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001435') end
A primary transcript encoding alanyl tRNA. (purl.obolibrary.org/obo/SO_0000211)
# File lib/biointerchange/so.rb, line 1587 def self.alanine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000211') end
A tRNA sequence that has an alanine anticodon, and a 3’ alanine binding region. (purl.obolibrary.org/obo/SO_0000254)
# File lib/biointerchange/so.rb, line 1845 def self.alanyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000254') end
An allele is one of a set of coexisting sequence variants of a gene. (purl.obolibrary.org/obo/SO_0001023)
# File lib/biointerchange/so.rb, line 6413 def self.allele return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001023') end
Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell. (purl.obolibrary.org/obo/SO_0000137)
# File lib/biointerchange/so.rb, line 1139 def self.allelically_excluded return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000137') end
A gene that is allelically_excluded. (purl.obolibrary.org/obo/SO_0000897)
# File lib/biointerchange/so.rb, line 5663 def self.allelically_excluded_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000897') end
A polyploid where the multiple chromosome set was derived from a different organism. (purl.obolibrary.org/obo/SO_0001256)
# File lib/biointerchange/so.rb, line 7801 def self.allopolyploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001256') end
A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative. (purl.obolibrary.org/obo/SO_0100008)
# File lib/biointerchange/so.rb, line 12395 def self.alpha_beta_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100008') end
The helix has 3.6 residues per turn which corersponds to a translation of 1.5 angstroms (= 0.15 nm) along the helical axis. Every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid four residues earlier. (purl.obolibrary.org/obo/SO_0001117)
# File lib/biointerchange/so.rb, line 6973 def self.alpha_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001117') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001508)
# File lib/biointerchange/so.rb, line 9307 def self.alteration_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001508') end
Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting. (purl.obolibrary.org/obo/SO_0001149)
# File lib/biointerchange/so.rb, line 7165 def self.alternate_sequence_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001149') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000503)
# File lib/biointerchange/so.rb, line 3337 def self.alternately_spliced_gene_encodeing_one_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000503') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000543)
# File lib/biointerchange/so.rb, line 3577 def self.alternately_spliced_gene_encoding_greater_than_one_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000543') end
An attribute describing a situation where a gene may encode for more than 1 transcript. (purl.obolibrary.org/obo/SO_0000877)
# File lib/biointerchange/so.rb, line 5543 def self.alternatively_spliced return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000877') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001194)
# File lib/biointerchange/so.rb, line 13427 def self.alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001194') end
A transcript that is alternatively spliced. (purl.obolibrary.org/obo/SO_1001187)
# File lib/biointerchange/so.rb, line 13385 def self.alternatively_spliced_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001187') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001244)
# File lib/biointerchange/so.rb, line 13457 def self.alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001244') end
A sequence feature that corresponds to a single amino acid residue in a polypeptide. (purl.obolibrary.org/obo/SO_0001237)
# File lib/biointerchange/so.rb, line 7693 def self.amino_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001237') end
A sequence variant within a CDS
resulting in the loss of an amino acid from the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001604)
# File lib/biointerchange/so.rb, line 9865 def self.amino_acid_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001604') end
A sequence variant within a CDS
resulting in the gain of an amino acid to the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001605)
# File lib/biointerchange/so.rb, line 9871 def self.amino_acid_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001605') end
A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001606)
# File lib/biointerchange/so.rb, line 9877 def self.amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001606') end
An origin_of_replication
that is used for the amplification of a chromosomal nucleic acid sequence. (purl.obolibrary.org/obo/SO_0000750)
# File lib/biointerchange/so.rb, line 4823 def self.amplification_origin return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000750') end
Part of an edited transcript only. (purl.obolibrary.org/obo/SO_0000977)
# File lib/biointerchange/so.rb, line 6137 def self.anchor_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000977') end
A region of a guide_RNA
that base-pairs to a target mRNA. (purl.obolibrary.org/obo/SO_0000931)
# File lib/biointerchange/so.rb, line 5867 def self.anchor_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000931') end
A non-palindromic sequence found in the promoters of genes whose expression is regulated in response to androgen. (purl.obolibrary.org/obo/SO_0001853)
# File lib/biointerchange/so.rb, line 11323 def self.androgen_response_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001853') end
A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number. (purl.obolibrary.org/obo/SO_0000054)
# File lib/biointerchange/so.rb, line 637 def self.aneuploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000054') end
A chromosome structural variation whereby either a chromosome exists in addition to the normal chromosome complement or is lacking. (purl.obolibrary.org/obo/SO_0000550)
# File lib/biointerchange/so.rb, line 3619 def self.aneuploid_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000550') end
The status of a whole genome sequence,where annotation, and verification of coding regions has occurred. (purl.obolibrary.org/obo/SO_0001489)
# File lib/biointerchange/so.rb, line 9193 def self.annotation_directed_improved_draft return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001489') end
A non-coding RNA
transcript, derived from the transcription of the telomere. These transcripts are antisense of ARRET
transcripts. (purl.obolibrary.org/obo/SO_0001926)
# File lib/biointerchange/so.rb, line 11761 def self.anti_ARRET return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001926') end
A sequence of three nucleotide bases in tRNA which recognizes a codon in mRNA. (purl.obolibrary.org/obo/SO_0001174)
# File lib/biointerchange/so.rb, line 7315 def self.anticodon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001174') end
A sequence of seven nucleotide bases in tRNA which contains the anticodon. It has the sequence 5’-pyrimidine-purine-anticodon-modified purine-any base-3. (purl.obolibrary.org/obo/SO_0001173)
# File lib/biointerchange/so.rb, line 7309 def self.anticodon_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001173') end
A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (one running N-terminal to C-terminal and one running C-terminal to N-terminal). Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i) and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they form two mutual backbone hydrogen bonds to each other’s flanking peptide groups; this is known as a close pair of hydrogen bonds. The peptide backbone dihedral angles (phi, psi) are about (-140 degrees, 135 degrees) in antiparallel sheets. (purl.obolibrary.org/obo/SO_0001112)
# File lib/biointerchange/so.rb, line 6943 def self.antiparallel_beta_strand return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001112') end
A region sequence that is complementary to a sequence of messenger RNA
. (purl.obolibrary.org/obo/SO_0000077)
# File lib/biointerchange/so.rb, line 779 def self.antisense return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000077') end
Antisense RNA
is RNA
that is transcribed from the coding, rather than the template, strand of DNA
. It is therefore complementary to mRNA. (purl.obolibrary.org/obo/SO_0000644)
# File lib/biointerchange/so.rb, line 4187 def self.antisense_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000644') end
Non-coding RNA
transcribed from the opposite DNA
strand compared with other transcripts and overlap in part with sense RNA
. (purl.obolibrary.org/obo/SO_0001904)
# File lib/biointerchange/so.rb, line 11629 def self.antisense_lncRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001904') end
The reverse complement of the primary transcript. (purl.obolibrary.org/obo/SO_0000645)
# File lib/biointerchange/so.rb, line 4193 def self.antisense_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000645') end
A chromosome originating in an apicoplast. (purl.obolibrary.org/obo/SO_0001259)
# File lib/biointerchange/so.rb, line 7819 def self.apicoplast_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001259') end
A gene from apicoplast sequence. (purl.obolibrary.org/obo/SO_0000091)
# File lib/biointerchange/so.rb, line 863 def self.apicoplast_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000091') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000743)
# File lib/biointerchange/so.rb, line 4781 def self.apicoplast_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000743') end
DNA
or RNA
molecules that have been selected from random pools based on their ability to bind other molecules. (purl.obolibrary.org/obo/SO_0000031)
# File lib/biointerchange/so.rb, line 495 def self.aptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000031') end
An intron characteristic of Archaeal tRNA and rRNA genes, where intron transcript generates a bulge-helix-bulge motif that is recognised by a splicing endoribonuclease. (purl.obolibrary.org/obo/SO_1001271)
# File lib/biointerchange/so.rb, line 13571 def self.archaeal_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001271') end
Archaeosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001323)
# File lib/biointerchange/so.rb, line 8203 def self.archaeosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001323') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001451)
# File lib/biointerchange/so.rb, line 8965 def self.arginine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001451') end
A primary transcript encoding arginyl tRNA (SO:0000255). (purl.obolibrary.org/obo/SO_0000212)
# File lib/biointerchange/so.rb, line 1593 def self.arginine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000212') end
A tRNA sequence that has an arginine anticodon, and a 3’ arginine binding region. (purl.obolibrary.org/obo/SO_0001036)
# File lib/biointerchange/so.rb, line 6491 def self.arginyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001036') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001449)
# File lib/biointerchange/so.rb, line 8953 def self.asparagine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001449') end
A primary transcript encoding asparaginyl tRNA (SO:0000256). (purl.obolibrary.org/obo/SO_0000213)
# File lib/biointerchange/so.rb, line 1599 def self.asparagine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000213') end
A tRNA sequence that has an asparagine anticodon, and a 3’ asparagine binding region. (purl.obolibrary.org/obo/SO_0000256)
# File lib/biointerchange/so.rb, line 1857 def self.asparaginyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000256') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001453)
# File lib/biointerchange/so.rb, line 8977 def self.aspartic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001453') end
A primary transcript encoding aspartyl tRNA (SO:0000257). (purl.obolibrary.org/obo/SO_0000214)
# File lib/biointerchange/so.rb, line 1605 def self.aspartic_acid_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000214') end
A tRNA sequence that has an aspartic acid anticodon, and a 3’ aspartic acid binding region. (purl.obolibrary.org/obo/SO_0000257)
# File lib/biointerchange/so.rb, line 1863 def self.aspartyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000257') end
A region of the genome of known length that is composed by ordering and aligning two or more different regions. (purl.obolibrary.org/obo/SO_0001248)
# File lib/biointerchange/so.rb, line 7753 def self.assembly return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001248') end
A region of known length which may be used to manufacture a longer region. (purl.obolibrary.org/obo/SO_0000143)
# File lib/biointerchange/so.rb, line 1175 def self.assembly_component return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000143') end
A region of sequence where the final nucleotide assignment differs from the original assembly due to an improvement that replaces a mistake. (purl.obolibrary.org/obo/SO_0001525)
# File lib/biointerchange/so.rb, line 9409 def self.assembly_error_correction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001525') end
This relationship is vague and up for discussion. (purl.obolibrary.org/obo/so_2_5_2.obo#associated_with)
# File lib/biointerchange/so.rb, line 23 def self.associated_with return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#associated_with') end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0000058)
Or:
A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency or a duplication. (http://purl.obolibrary.org/obo/SO_0000803)
# File lib/biointerchange/so.rb, line 665 def self.assortment_derived_aneuploid return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000058'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000803') ] end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0000052)
Or:
A multi-chromosome deficiency aberration generated by reassortment of other aberration components. (http://purl.obolibrary.org/obo/SO_0000802)
# File lib/biointerchange/so.rb, line 625 def self.assortment_derived_deficiency return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000052'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000802') ] end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0000554)
Or:
A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency and a duplication. (http://purl.obolibrary.org/obo/SO_0000801)
# File lib/biointerchange/so.rb, line 3647 def self.assortment_derived_deficiency_plus_duplication return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000554'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000801') ] end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0000437)
Or:
A multi-chromosome duplication aberration generated by reassortment of other aberration components. (http://purl.obolibrary.org/obo/SO_0000800)
# File lib/biointerchange/so.rb, line 2941 def self.assortment_derived_duplication return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000437'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000800') ] end
A chromosome variation derived from an event during meiosis. (purl.obolibrary.org/obo/SO_0001504)
# File lib/biointerchange/so.rb, line 9283 def self.assortment_derived_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001504') end
A motif of five consecutive residues and two H-bonds in which: Residue(i) is Aspartate or Asparagine (Asx), side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3), main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4). (purl.obolibrary.org/obo/SO_0001106)
# File lib/biointerchange/so.rb, line 6907 def self.asx_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001106') end
A motif of three consecutive residues and one H-bond in which: residue(i) is Aspartate or Asparagine (Asx), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2). (purl.obolibrary.org/obo/SO_0000912)
# File lib/biointerchange/so.rb, line 5753 def self.asx_turn return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000912') end
Left handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001129)
# File lib/biointerchange/so.rb, line 7045 def self.asx_turn_left_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001129') end
Left handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001130)
# File lib/biointerchange/so.rb, line 7051 def self.asx_turn_left_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001130') end
Right handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001132)
# File lib/biointerchange/so.rb, line 7063 def self.asx_turn_right_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001132') end
Right handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001131)
# File lib/biointerchange/so.rb, line 7057 def self.asx_turn_right_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001131') end
An internal RNA
loop where one of the strands includes more bases than the corresponding region on the other strand. (purl.obolibrary.org/obo/SO_0000021)
# File lib/biointerchange/so.rb, line 435 def self.asymmetric_RNA_internal_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000021') end
An integration/excision site of a bacterial chromosome at which a recombinase acts to insert foreign DNA
containing a cognate integration/excision site. (purl.obolibrary.org/obo/SO_0000943)
# File lib/biointerchange/so.rb, line 5939 def self.attB_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000943') end
An attC site is a sequence required for the integration of a DNA
of an integron. (purl.obolibrary.org/obo/SO_0000950)
# File lib/biointerchange/so.rb, line 5981 def self.attC_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000950') end
An attachment site located on a conjugative transposon and used for site-specific integration of a conjugative transposon. (purl.obolibrary.org/obo/SO_0001043)
# File lib/biointerchange/so.rb, line 6533 def self.attCtn_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001043') end
A region within an integron, adjacent to an integrase, at which site specific recombination involving an attC_site
takes place. (purl.obolibrary.org/obo/SO_0000367)
# File lib/biointerchange/so.rb, line 2517 def self.attI_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000367') end
A region that results from recombination between attP_site
and attB_site
, composed of the 5’ portion of attB_site
and the 3’ portion of attP_site. (purl.obolibrary.org/obo/SO_0000944)
# File lib/biointerchange/so.rb, line 5945 def self.attL_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000944') end
An integration/excision site of a phage chromosome at which a recombinase acts to insert the phage DNA
at a cognate integration/excision site on a bacterial chromosome. (purl.obolibrary.org/obo/SO_0000942)
# File lib/biointerchange/so.rb, line 5933 def self.attP_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000942') end
A region that results from recombination between attP_site
and attB_site
, composed of the 5’ portion of attP_site
and the 3’ portion of attB_site. (purl.obolibrary.org/obo/SO_0000945)
# File lib/biointerchange/so.rb, line 5951 def self.attR_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000945') end
A sequence segment located within the five prime end of an mRNA that causes premature termination of translation. (purl.obolibrary.org/obo/SO_0000140)
# File lib/biointerchange/so.rb, line 1157 def self.attenuator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000140') end
A self spliced intron. (purl.obolibrary.org/obo/SO_0000588)
# File lib/biointerchange/so.rb, line 3851 def self.autocatalytically_spliced_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000588') end
A polyploid where the multiple chromosome set was derived from the same organism. (purl.obolibrary.org/obo/SO_0001255)
# File lib/biointerchange/so.rb, line 7795 def self.autopolyploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001255') end
The gene product is involved in its own transcriptional regulation. (purl.obolibrary.org/obo/SO_0000471)
# File lib/biointerchange/so.rb, line 3145 def self.autoregulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000471') end
An autosynaptic chromosome is the aneuploid product of recombination between a pericentric inversion and a cytologically wild-type chromosome. (purl.obolibrary.org/obo/SO_1000136)
# File lib/biointerchange/so.rb, line 13163 def self.autosynaptic_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000136') end
A DNA
sequence to which bacterial RNA
polymerase binds, to begin transcription. (purl.obolibrary.org/obo/SO_0000613)
# File lib/biointerchange/so.rb, line 4001 def self.bacterial_RNApol_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000613') end
A region which is part of a bacterial RNA
polymerase promoter. (purl.obolibrary.org/obo/SO_0000843)
# File lib/biointerchange/so.rb, line 5339 def self.bacterial_RNApol_promoter_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000843') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001672)
# File lib/biointerchange/so.rb, line 10243 def self.bacterial_RNApol_promoter_sigma54 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001672') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001671)
# File lib/biointerchange/so.rb, line 10237 def self.bacterial_RNApol_promoter_sigma_70 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001671') end
A bacterial promoter with sigma ecf factor binding dependency. This is a type of bacterial promoters that requires a sigma ECF factor to bind to identified -10 and -35 sequence regions in order to mediate binding of the RNA
polymerase to the promoter region as part of transcription initiation. (purl.obolibrary.org/obo/SO_0001913)
# File lib/biointerchange/so.rb, line 11683 def self.bacterial_RNApol_promoter_sigma_ecf return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001913') end
A terminator signal for bacterial transcription. (purl.obolibrary.org/obo/SO_0000614)
# File lib/biointerchange/so.rb, line 4007 def self.bacterial_terminator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000614') end
A base is a sequence feature that corresponds to a single unit of a nucleotide polymer. (purl.obolibrary.org/obo/SO_0001236)
# File lib/biointerchange/so.rb, line 7687 def self.base return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001236') end
A region of sequence where the final nucleotide assignment is different from that given by the base caller due to an improvement that replaces a mistake. (purl.obolibrary.org/obo/SO_0001526)
# File lib/biointerchange/so.rb, line 9415 def self.base_call_error_correction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001526') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000028)
# File lib/biointerchange/so.rb, line 477 def self.base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000028') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001770)
# File lib/biointerchange/so.rb, line 10831 def self.benign_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001770') end
A motif of three residues within a beta-sheet in which the main chains of two consecutive residues are H-bonded to that of the third, and in which the dihedral angles are as follows: Residue(i): -140 degrees < phi(l) -20 degrees , -90 degrees < psi(l) < 40 degrees. Residue (i+1): -180 degrees < phi < -25 degrees or +120 degrees < phi < +180 degrees, +40 degrees < psi < +180 degrees or -180 degrees < psi < -120 degrees. (purl.obolibrary.org/obo/SO_0001107)
# File lib/biointerchange/so.rb, line 6913 def self.beta_bulge return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001107') end
A motif of three residues within a beta-sheet consisting of two H-bonds. Beta bulge loops often occur at the loop ends of beta-hairpins. (purl.obolibrary.org/obo/SO_0001108)
# File lib/biointerchange/so.rb, line 6919 def self.beta_bulge_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001108') end
A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+4), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+3), these loops have an RL nest at residues i+2 and i+3. (purl.obolibrary.org/obo/SO_0001109)
# File lib/biointerchange/so.rb, line 6925 def self.beta_bulge_loop_five return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001109') end
A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+5), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+4), these loops have an RL nest at residues i+3 and i+4. (purl.obolibrary.org/obo/SO_0001110)
# File lib/biointerchange/so.rb, line 6931 def self.beta_bulge_loop_six return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001110') end
A beta strand describes a single length of polypeptide chain that forms part of a beta sheet. A single continuous stretch of amino acids adopting an extended conformation of hydrogen bonds between the N-O and the C=O of another part of the peptide. This forms a secondary protein structure in which two or more extended polypeptide regions are hydrogen-bonded to one another in a planar array. (purl.obolibrary.org/obo/SO_0001111)
# File lib/biointerchange/so.rb, line 6937 def self.beta_strand return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001111') end
A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles of the second and third residues, which are the basis for sub-categorization. (purl.obolibrary.org/obo/SO_0001133)
# File lib/biointerchange/so.rb, line 7069 def self.beta_turn return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001133') end
Left handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles:- Residue(i+1): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. Residue(i+2): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. (purl.obolibrary.org/obo/SO_0001134)
# File lib/biointerchange/so.rb, line 7075 def self.beta_turn_left_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001134') end
Left handed type II: A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees > phi > -20 degrees, +80 degrees > psi > +180 degrees. Residue(i+2): +20 degrees > phi > +140 degrees, -40 degrees > psi > +90 degrees. (purl.obolibrary.org/obo/SO_0001135)
# File lib/biointerchange/so.rb, line 7081 def self.beta_turn_left_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001135') end
Right handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+2): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001136)
# File lib/biointerchange/so.rb, line 7087 def self.beta_turn_right_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001136') end
Right handed type II:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, +80 degrees < psi < +180 degrees. Residue(i+2): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001137)
# File lib/biointerchange/so.rb, line 7093 def self.beta_turn_right_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001137') end
A motif of four consecutive peptide residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ -30 degrees. Residue(i+2): phi ~ -120 degrees, psi ~ 120 degrees. (purl.obolibrary.org/obo/SO_0001155)
# File lib/biointerchange/so.rb, line 7201 def self.beta_turn_type_eight return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001155') end
A motif of four consecutive peptide resides of type VIa or type VIb and where the i+2 residue is cis-proline. (purl.obolibrary.org/obo/SO_0001150)
# File lib/biointerchange/so.rb, line 7171 def self.beta_turn_type_six return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001150') end
A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -90 degrees, psi ~ 0 degrees. (purl.obolibrary.org/obo/SO_0001151)
# File lib/biointerchange/so.rb, line 7177 def self.beta_turn_type_six_a return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001151') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001152)
# File lib/biointerchange/so.rb, line 7183 def self.beta_turn_type_six_a_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001152') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001153)
# File lib/biointerchange/so.rb, line 7189 def self.beta_turn_type_six_a_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001153') end
A motif of four consecutive peptide residues, of which the i+2 residue is proline, and that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -120 degrees, psi ~ 120 degrees. Residue(i+2): phi ~ -60 degrees, psi ~ 0 degrees. (purl.obolibrary.org/obo/SO_0001154)
# File lib/biointerchange/so.rb, line 7195 def self.beta_turn_type_six_b return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001154') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000568)
# File lib/biointerchange/so.rb, line 3731 def self.bidirectional_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000568') end
A biological_region
of sequence that, in the molecule, interacts selectively and non-covalently with other molecules. A region on the surface of a molecule that may interact with another molecule. When applied to polypeptides: Amino acids involved in binding or interactions. It can also apply to an amino acid bond which is represented by the positions of the two flanking amino acids. (purl.obolibrary.org/obo/SO_0000409)
# File lib/biointerchange/so.rb, line 2769 def self.binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000409') end
A region of a peptide that is involved in a biochemical function. (purl.obolibrary.org/obo/SO_0100001)
# File lib/biointerchange/so.rb, line 12353 def self.biochemical_region_of_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100001') end
A region defined by its disposition to be involved in a biological process. (purl.obolibrary.org/obo/SO_0001411)
# File lib/biointerchange/so.rb, line 8731 def self.biological_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001411') end
A region which is intended for use in an experiment. (purl.obolibrary.org/obo/SO_0001409)
# File lib/biointerchange/so.rb, line 8719 def self.biomaterial_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001409') end
An interchromosomal mutation whereby the (large) region between the first two breaks listed is lost, and the two flanking segments (one of them centric) are joined as a translocation to the free ends resulting from the third break. (purl.obolibrary.org/obo/SO_1000149)
# File lib/biointerchange/so.rb, line 13229 def self.bipartite_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000149') end
A chromosomal inversion caused by three breaks in the same chromosome; both central segments are inverted in place (i.e., they are not transposed). (purl.obolibrary.org/obo/SO_1000151)
# File lib/biointerchange/so.rb, line 13241 def self.bipartite_inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000151') end
A reading_frame
that is interrupted by one or more stop codons; usually identified through intergenomic sequence comparisons. (purl.obolibrary.org/obo/SO_0000718)
# File lib/biointerchange/so.rb, line 4631 def self.blocked_reading_frame return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000718') end
A restriction enzyme cleavage site where both strands are cut at the same position. (purl.obolibrary.org/obo/SO_0001693)
# File lib/biointerchange/so.rb, line 10369 def self.blunt_end_restriction_enzyme_cleavage_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001693') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001691)
# File lib/biointerchange/so.rb, line 10357 def self.blunt_end_restriction_enzyme_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001691') end
An attribute describing a sequence that is bound by another molecule. (purl.obolibrary.org/obo/SO_0000277)
# File lib/biointerchange/so.rb, line 1983 def self.bound_by_factor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000277') end
An attribute describing a sequence that is bound by a nucleic acid. (purl.obolibrary.org/obo/SO_0000876)
# File lib/biointerchange/so.rb, line 5537 def self.bound_by_nucleic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000876') end
An attribute describing a sequence that is bound by a protein. (purl.obolibrary.org/obo/SO_0000875)
# File lib/biointerchange/so.rb, line 5531 def self.bound_by_protein return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000875') end
A pyrimidine rich sequence near the 3’ end of an intron to which the 5’end becomes covalently bound during nuclear splicing. The resulting structure resembles a lariat. (purl.obolibrary.org/obo/SO_0000611)
# File lib/biointerchange/so.rb, line 3989 def self.branch_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000611') end
DNA
synthesized by reverse transcriptase using RNA
as a template. (purl.obolibrary.org/obo/SO_0000756)
# File lib/biointerchange/so.rb, line 4859 def self.cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000756') end
Complementary DNA
; A piece of DNA
copied from an mRNA and spliced into a vector for propagation in a suitable host. (purl.obolibrary.org/obo/SO_0000317)
# File lib/biointerchange/so.rb, line 2223 def self.cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000317') end
A match against cDNA sequence. (purl.obolibrary.org/obo/SO_0000689)
# File lib/biointerchange/so.rb, line 4457 def self.cDNA_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000689') end
The more polar, carboxy-terminal region of the signal peptide (approx 3-7 aa). (purl.obolibrary.org/obo/SO_0100015)
# File lib/biointerchange/so.rb, line 12437 def self.c_terminal_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100015') end
A gene suspected of being involved in the expression of a trait. (purl.obolibrary.org/obo/SO_0001867)
# File lib/biointerchange/so.rb, line 11407 def self.candidate_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001867') end
The canonical 5’ splice site has the sequence "GT". (SO:ke) (purl.obolibrary.org/obo/SO_0000677)
# File lib/biointerchange/so.rb, line 4385 def self.canonical_five_prime_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000677') end
The major class of splice site with dinucleotides GT and AG for donor and acceptor sites, respectively. (purl.obolibrary.org/obo/SO_0000675)
# File lib/biointerchange/so.rb, line 4373 def self.canonical_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000675') end
The canonical 3’ splice site has the sequence "AG". (SO:ke) (purl.obolibrary.org/obo/SO_0000676)
# File lib/biointerchange/so.rb, line 4379 def self.canonical_three_prime_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000676') end
A structure consisting of a 7-methylguanosine in 5’-5’ triphosphate linkage with the first nucleotide of an mRNA. It is added post-transcriptionally, and is not encoded in the DNA
. (purl.obolibrary.org/obo/SO_0000581)
# File lib/biointerchange/so.rb, line 3809 def self.cap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000581') end
An attribute describing when a sequence, usually an mRNA is capped by the addition of a modified guanine nucleotide at the 5’ end. (purl.obolibrary.org/obo/SO_0000146)
# File lib/biointerchange/so.rb, line 1193 def self.capped return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000146') end
An mRNA that is capped. (purl.obolibrary.org/obo/SO_0000862)
# File lib/biointerchange/so.rb, line 5453 def self.capped_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000862') end
A primary transcript that is capped. (purl.obolibrary.org/obo/SO_0000861)
# File lib/biointerchange/so.rb, line 5447 def self.capped_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000861') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0005847)
# File lib/biointerchange/so.rb, line 12281 def self.cassette_array_member return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005847') end
A cassette pseudogene is a kind of gene in an inactive form which may recombine at a telomeric locus to form a functional copy. (purl.obolibrary.org/obo/SO_0001434)
# File lib/biointerchange/so.rb, line 8863 def self.cassette_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001434') end
Amino acid involved in the activity of an enzyme. (purl.obolibrary.org/obo/SO_0001104)
# File lib/biointerchange/so.rb, line 6895 def self.catalytic_residue return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001104') end
A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2. (purl.obolibrary.org/obo/SO_0100005)
# File lib/biointerchange/so.rb, line 12377 def self.catmat_left_handed_four return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100005') end
A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1. (purl.obolibrary.org/obo/SO_0100004)
# File lib/biointerchange/so.rb, line 12371 def self.catmat_left_handed_three return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100004') end
A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2. (purl.obolibrary.org/obo/SO_0100007)
# File lib/biointerchange/so.rb, line 12389 def self.catmat_right_handed_four return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100007') end
A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1. (purl.obolibrary.org/obo/SO_0100006)
# File lib/biointerchange/so.rb, line 12383 def self.catmat_right_handed_three return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100006') end
The central, hydrophobic region of the signal peptide (approx 7-15 aa). (purl.obolibrary.org/obo/SO_0100016)
# File lib/biointerchange/so.rb, line 12443 def self.central_hydrophobic_region_of_signal_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100016') end
A region of chromosome where the spindle fibers attach during mitosis and meiosis. (purl.obolibrary.org/obo/SO_0000577)
# File lib/biointerchange/so.rb, line 3785 def self.centromere return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000577') end
A centromere DNA
Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region composed of 8-11bp which enables binding by the centromere binding factor 1(Cbf1p). (purl.obolibrary.org/obo/SO_0001493)
# File lib/biointerchange/so.rb, line 9217 def self.centromere_DNA_Element_I return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001493') end
A centromere DNA
Element II (CDEII) is part a conserved region of the centromere, consisting of a consensus region that is AT-rich and ~ 75-100 bp in length. (purl.obolibrary.org/obo/SO_0001494)
# File lib/biointerchange/so.rb, line 9223 def self.centromere_DNA_Element_II return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001494') end
A centromere DNA
Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region that consists of a 25-bp which enables binding by the centromere DNA
binding factor 3 (CBF3) complex. (purl.obolibrary.org/obo/SO_0001495)
# File lib/biointerchange/so.rb, line 9229 def self.centromere_DNA_Element_III return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001495') end
A repeat region found within the modular centromere. (purl.obolibrary.org/obo/SO_0001797)
# File lib/biointerchange/so.rb, line 10987 def self.centromeric_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001797') end
A cDNA clone invalidated because it is chimeric. (purl.obolibrary.org/obo/SO_0000810)
# File lib/biointerchange/so.rb, line 5153 def self.chimeric_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000810') end
This term is used by MO. (purl.obolibrary.org/obo/SO_0001033)
# File lib/biointerchange/so.rb, line 6473 def self.chloroplast_DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001033') end
A sequencer read of a chloroplast DNA
sample. (purl.obolibrary.org/obo/SO_0001930)
# File lib/biointerchange/so.rb, line 11785 def self.chloroplast_DNA_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001930') end
A chromosome originating in a chloroplast. (purl.obolibrary.org/obo/SO_0000820)
# File lib/biointerchange/so.rb, line 5213 def self.chloroplast_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000820') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000745)
# File lib/biointerchange/so.rb, line 4793 def self.chloroplast_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000745') end
A chromosome originating in a chromoplast. (purl.obolibrary.org/obo/SO_0000821)
# File lib/biointerchange/so.rb, line 5219 def self.chromoplast_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000821') end
A gene from chromoplast_sequence. (purl.obolibrary.org/obo/SO_0000093)
# File lib/biointerchange/so.rb, line 875 def self.chromoplast_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000093') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000744)
# File lib/biointerchange/so.rb, line 4787 def self.chromoplast_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000744') end
An incomplete chromosome. (purl.obolibrary.org/obo/SO_1000029)
# File lib/biointerchange/so.rb, line 12617 def self.chromosomal_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000029') end
An extra chromosome. (purl.obolibrary.org/obo/SO_1000037)
# File lib/biointerchange/so.rb, line 12653 def self.chromosomal_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000037') end
An interchromosomal mutation where a region of the chromosome is inverted with respect to wild type. (purl.obolibrary.org/obo/SO_1000030)
# File lib/biointerchange/so.rb, line 12623 def self.chromosomal_inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000030') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000626)
# File lib/biointerchange/so.rb, line 4079 def self.chromosomal_regulatory_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000626') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000628)
# File lib/biointerchange/so.rb, line 4091 def self.chromosomal_structural_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000628') end
An interchromosomal mutation. Rearrangements that alter the pairing of telomeres are classified as translocations. (purl.obolibrary.org/obo/SO_1000044)
# File lib/biointerchange/so.rb, line 12695 def self.chromosomal_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000044') end
A chromosome structure variant whereby a region of a chromosome has been transferred to another position. Among interchromosomal rearrangements, the term transposition is reserved for that class in which the telomeres of the chromosomes involved are coupled (that is to say, form the two ends of a single DNA
molecule) as in wild-type. (purl.obolibrary.org/obo/SO_0000453)
# File lib/biointerchange/so.rb, line 3037 def self.chromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000453') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001509)
# File lib/biointerchange/so.rb, line 9313 def self.chromosomal_variation_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001509') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001524)
# File lib/biointerchange/so.rb, line 9403 def self.chromosomally_aberrant_genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001524') end
Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication. (purl.obolibrary.org/obo/SO_0000340)
# File lib/biointerchange/so.rb, line 2361 def self.chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000340') end
A region of the chromosome between the centromere and the telomere. Human chromosomes have two arms, the p arm (short) and the q arm (long) which are separated from each other by the centromere. (purl.obolibrary.org/obo/SO_0000105)
# File lib/biointerchange/so.rb, line 947 def self.chromosome_arm return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000105') end
A cytologically distinguishable feature of a chromosome, often made visible by staining, and usually alternating light and dark. (purl.obolibrary.org/obo/SO_0000341)
# File lib/biointerchange/so.rb, line 2367 def self.chromosome_band return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000341') end
A sequence within the micronuclear DNA
of ciliates at which chromosome breakage and telomere addition occurs during nuclear differentiation. (purl.obolibrary.org/obo/SO_0000670)
# File lib/biointerchange/so.rb, line 4343 def self.chromosome_breakage_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000670') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001021)
# File lib/biointerchange/so.rb, line 6401 def self.chromosome_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001021') end
A chromosome that occurred by the division of a larger chromosome. (purl.obolibrary.org/obo/SO_1000141)
# File lib/biointerchange/so.rb, line 13181 def self.chromosome_fission return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000141') end
A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number. (purl.obolibrary.org/obo/SO_1000182)
# File lib/biointerchange/so.rb, line 13349 def self.chromosome_number_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000182') end
A region of a chromosome. (purl.obolibrary.org/obo/SO_0000830)
# File lib/biointerchange/so.rb, line 5261 def self.chromosome_part return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000830') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000183)
# File lib/biointerchange/so.rb, line 13355 def self.chromosome_structure_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000183') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000240)
# File lib/biointerchange/so.rb, line 1761 def self.chromosome_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000240') end
A quality of a nucleotide polymer that has no terminal nucleotide residues. (purl.obolibrary.org/obo/SO_0000988)
# File lib/biointerchange/so.rb, line 6203 def self.circular return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000988') end
Structural unit composed of a self-replicating, double-stranded, circular DNA
molecule. (purl.obolibrary.org/obo/SO_0000958)
# File lib/biointerchange/so.rb, line 6029 def self.circular_double_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000958') end
Structural unit composed of a self-replicating, double-stranded, circular RNA
molecule. (purl.obolibrary.org/obo/SO_0000967)
# File lib/biointerchange/so.rb, line 6083 def self.circular_double_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000967') end
Structural unit composed of a self-replicating, single-stranded, circular DNA
molecule. (purl.obolibrary.org/obo/SO_0000960)
# File lib/biointerchange/so.rb, line 6041 def self.circular_single_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000960') end
Structural unit composed of a self-replicating, single-stranded, circular DNA
molecule. (purl.obolibrary.org/obo/SO_0000966)
# File lib/biointerchange/so.rb, line 6077 def self.circular_single_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000966') end
A structural region in an RNA
molecule which promotes ribosomal frameshifting of cis coding sequence. (purl.obolibrary.org/obo/SO_0001427)
# File lib/biointerchange/so.rb, line 8827 def self.cis_regulatory_frameshift_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001427') end
Intronic 2 bp region bordering exon. A splice_site
that adjacent_to
exon and overlaps intron. (purl.obolibrary.org/obo/SO_0001419)
# File lib/biointerchange/so.rb, line 8779 def self.cis_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001419') end
Small non-coding RNA
(59-60 nt long) containing 5’ and 3’ ends that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm. (purl.obolibrary.org/obo/SO_0000989)
# File lib/biointerchange/so.rb, line 6209 def self.class_II_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000989') end
Small non-coding RNA
(55-65 nt long) containing highly conserved 5’ and 3’ ends (16 and 8 nt, respectively) that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm. (purl.obolibrary.org/obo/SO_0000990)
# File lib/biointerchange/so.rb, line 6215 def self.class_I_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000990') end
The C-terminal residues of a polypeptide which are exchanged for a GPI-anchor. (purl.obolibrary.org/obo/SO_0001408)
# File lib/biointerchange/so.rb, line 8713 def self.cleaved_for_gpi_anchor_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001408') end
The initiator methionine that has been cleaved from a mature polypeptide sequence. (purl.obolibrary.org/obo/SO_0000691)
# File lib/biointerchange/so.rb, line 4469 def self.cleaved_initiator_methionine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000691') end
The cleaved_peptide_region
is the region of a peptide sequence that is cleaved during maturation. (purl.obolibrary.org/obo/SO_0100011)
# File lib/biointerchange/so.rb, line 12413 def self.cleaved_peptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100011') end
Part of the primary transcript that is clipped off during processing. (purl.obolibrary.org/obo/SO_0000303)
# File lib/biointerchange/so.rb, line 2139 def self.clip return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000303') end
A piece of DNA
that has been inserted in a vector so that it can be propagated in a host bacterium or some other organism. (purl.obolibrary.org/obo/SO_0000151)
# File lib/biointerchange/so.rb, line 1223 def self.clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000151') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000787)
# File lib/biointerchange/so.rb, line 5039 def self.clone_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000787') end
A read from an end of the clone sequence. (purl.obolibrary.org/obo/SO_0001793)
# File lib/biointerchange/so.rb, line 10963 def self.clone_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001793') end
The region of sequence that has been inserted and is being propagated by the clone. (purl.obolibrary.org/obo/SO_0000753)
# File lib/biointerchange/so.rb, line 4841 def self.clone_insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000753') end
The end of the clone insert. (purl.obolibrary.org/obo/SO_0000103)
# File lib/biointerchange/so.rb, line 935 def self.clone_insert_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000103') end
Either:
The start of the clone insert. (http://purl.obolibrary.org/obo/SO_0000179)
Or:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0000767)
# File lib/biointerchange/so.rb, line 1395 def self.clone_insert_start return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000179'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000767') ] end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000788)
# File lib/biointerchange/so.rb, line 5045 def self.cloned return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000788') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000792)
# File lib/biointerchange/so.rb, line 5069 def self.cloned_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000792') end
A clone insert made from cDNA. (purl.obolibrary.org/obo/SO_0000913)
# File lib/biointerchange/so.rb, line 5759 def self.cloned_cDNA_insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000913') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000791)
# File lib/biointerchange/so.rb, line 5063 def self.cloned_genomic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000791') end
A clone insert made from genomic DNA
. (purl.obolibrary.org/obo/SO_0000914)
# File lib/biointerchange/so.rb, line 5765 def self.cloned_genomic_insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000914') end
Added in response to Lynn Crosby. A clone insert may be composed of many cloned regions. (purl.obolibrary.org/obo/SO_0000785)
# File lib/biointerchange/so.rb, line 5027 def self.cloned_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000785') end
Coding region of sequence similarity by descent from a common ancestor. (purl.obolibrary.org/obo/SO_0000332)
# File lib/biointerchange/so.rb, line 2313 def self.coding_conserved_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000332') end
The last base to be translated into protein. It does not include the stop codon. (purl.obolibrary.org/obo/SO_0000327)
# File lib/biointerchange/so.rb, line 2283 def self.coding_end return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000327') end
An exon whereby at least one base is part of a codon (here, ‘codon’ is inclusive of the stop_codon
). (purl.obolibrary.org/obo/SO_0000195)
# File lib/biointerchange/so.rb, line 1491 def self.coding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000195') end
The region of an exon that encodes for protein sequence. (purl.obolibrary.org/obo/SO_0001215)
# File lib/biointerchange/so.rb, line 7561 def self.coding_region_of_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001215') end
A sequence variant that changes the coding sequence. (purl.obolibrary.org/obo/SO_0001580)
# File lib/biointerchange/so.rb, line 9739 def self.coding_sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001580') end
The first base to be translated into protein. (purl.obolibrary.org/obo/SO_0000323)
# File lib/biointerchange/so.rb, line 2259 def self.coding_start return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000323') end
A transcript variant occurring within an intron of a coding transcript. (purl.obolibrary.org/obo/SO_0001969)
# File lib/biointerchange/so.rb, line 12023 def self.coding_transcript_intron_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001969') end
A transcript variant of a protein coding gene. (purl.obolibrary.org/obo/SO_0001968)
# File lib/biointerchange/so.rb, line 12017 def self.coding_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001968') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001814)
# File lib/biointerchange/so.rb, line 11089 def self.coding_variant_quality return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001814') end
A set of (usually) three nucleotide bases in a DNA
or RNA
sequence, which together code for a unique amino acid or the termination of translation and are contained within the CDS
. (purl.obolibrary.org/obo/SO_0000360)
# File lib/biointerchange/so.rb, line 2475 def self.codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000360') end
An attribute describing the alteration of codon meaning. (purl.obolibrary.org/obo/SO_0000882)
# File lib/biointerchange/so.rb, line 5573 def self.codon_redefined return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000882') end
A coiled coil is a structural motif in proteins, in which alpha-helices are coiled together like the strands of a rope. (purl.obolibrary.org/obo/SO_0001080)
# File lib/biointerchange/so.rb, line 6751 def self.coiled_coil return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001080') end
A MGE region consisting of two fused plasmids resulting from a replicative transposition event. (purl.obolibrary.org/obo/SO_0001045)
# File lib/biointerchange/so.rb, line 6545 def self.cointegrated_plasmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001045') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001767)
# File lib/biointerchange/so.rb, line 10813 def self.common_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001767') end
A secondary structure variant that compensate for the change made by a previous variant. (purl.obolibrary.org/obo/SO_0001597)
# File lib/biointerchange/so.rb, line 9823 def self.compensatory_transcript_secondary_structure_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001597') end
B is complete_evidence_for_feature
A if the extent (5’ and 3’ boundaries) and internal boundaries of B fully support the extent and internal boundaries of A. (purl.obolibrary.org/obo/so_2_5_2.obo#complete_evidence_for_feature)
# File lib/biointerchange/so.rb, line 29 def self.complete_evidence_for_feature return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#complete_evidence_for_feature') end
A sequence variant that changes the resulting polypeptide structure. (purl.obolibrary.org/obo/SO_0001600)
# File lib/biointerchange/so.rb, line 9841 def self.complex_3D_structural_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001600') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001602)
# File lib/biointerchange/so.rb, line 9853 def self.complex_change_of_translational_product_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001602') end
A chromosome structure variant with 4 or more breakpoints. (purl.obolibrary.org/obo/SO_1000146)
# File lib/biointerchange/so.rb, line 13211 def self.complex_chromosomal_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000146') end
A structural sequence alteration or rearrangement encompassing one or more genome fragments. (purl.obolibrary.org/obo/SO_0001784)
# File lib/biointerchange/so.rb, line 10909 def self.complex_structural_alteration return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001784') end
When no simple or well defined DNA
mutation event describes the observed DNA
change, the keyword "complex" should be used. Usually there are multiple equally plausible explanations for the change. (EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html) (purl.obolibrary.org/obo/SO_1000005)
# File lib/biointerchange/so.rb, line 12485 def self.complex_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000005') end
A transcript variant with a complex INDEL- Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border. (purl.obolibrary.org/obo/SO_0001577)
# File lib/biointerchange/so.rb, line 9721 def self.complex_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001577') end
Polypeptide region that is rich in a particular amino acid or homopolymeric and greater than three residues in length. (purl.obolibrary.org/obo/SO_0001066)
# File lib/biointerchange/so.rb, line 6673 def self.compositionally_biased_region_of_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001066') end
A chromosome structure variant where a monocentric element is caused by the fusion of two chromosome arms. (purl.obolibrary.org/obo/SO_1000042)
# File lib/biointerchange/so.rb, line 12683 def self.compound_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000042') end
FLAG - this term is should probably be a part of rather than an is_a. (purl.obolibrary.org/obo/SO_0000060)
# File lib/biointerchange/so.rb, line 677 def self.compound_chromosome_arm return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000060') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000309)
# File lib/biointerchange/so.rb, line 2175 def self.computed_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000309') end
. (purl.obolibrary.org/obo/SO_0000311)
# File lib/biointerchange/so.rb, line 2187 def self.computed_feature_by_similarity return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000311') end
A sequence variant in the CDS
region that causes a conformational change in the resulting polypeptide sequence. (purl.obolibrary.org/obo/SO_0001601)
# File lib/biointerchange/so.rb, line 9847 def self.conformational_change_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001601') end
A region of a polypeptide, involved in the transition from one conformational state to another. (purl.obolibrary.org/obo/SO_0001422)
# File lib/biointerchange/so.rb, line 8797 def self.conformational_switch return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001422') end
A transposon that encodes function required for conjugation. (purl.obolibrary.org/obo/SO_0000371)
# File lib/biointerchange/so.rb, line 2541 def self.conjugative_transposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000371') end
X connects_on
Y, Z, R iff whenever Z is on a R, X is adjacent to a Y and adjacent to a Z. (purl.obolibrary.org/obo/so_2_5_2.obo#connects_on)
# File lib/biointerchange/so.rb, line 35 def self.connects_on return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#connects_on') end
Term added Dec 06 to comply with mapping to MGED terms. It should be used to generate consensus regions. The specific cross product terms they require are consensus_region
and consensus_mRNA. (purl.obolibrary.org/obo/SO_0000993)
# File lib/biointerchange/so.rb, line 6233 def self.consensus return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000993') end
A consensus AFLP fragment is an AFLP sequence produced from any alignment algorithm which uses assembled multiple AFLP sequences as input. (purl.obolibrary.org/obo/SO_0001991)
# File lib/biointerchange/so.rb, line 12149 def self.consensus_AFLP_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001991') end
Genomic DNA
sequence produced from some base calling or alignment algorithm which uses aligned or assembled multiple gDNA sequences as input. (purl.obolibrary.org/obo/SO_0001931)
# File lib/biointerchange/so.rb, line 11791 def self.consensus_gDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001931') end
DO not obsolete without considering MGED mapping. (purl.obolibrary.org/obo/SO_0000995)
# File lib/biointerchange/so.rb, line 6245 def self.consensus_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000995') end
DO not obsolete without considering MGED mapping. (purl.obolibrary.org/obo/SO_0000994)
# File lib/biointerchange/so.rb, line 6239 def self.consensus_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000994') end
A sequence variant of a codon causing the substitution of a similar amino acid for another in the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001607)
# File lib/biointerchange/so.rb, line 9883 def self.conservative_amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001607') end
An inframe decrease in cds length that deletes one or more entire codons from the coding sequence but does not change any remaining codons. (purl.obolibrary.org/obo/SO_0001825)
# File lib/biointerchange/so.rb, line 11155 def self.conservative_inframe_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001825') end
An inframe increase in cds length that inserts one or more codons into the coding sequence between existing codons. (purl.obolibrary.org/obo/SO_0001823)
# File lib/biointerchange/so.rb, line 11143 def self.conservative_inframe_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001823') end
A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for a different but similar amino acid. These variants may or may not be deleterious. (purl.obolibrary.org/obo/SO_0001585)
# File lib/biointerchange/so.rb, line 9757 def self.conservative_missense_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001585') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000856)
# File lib/biointerchange/so.rb, line 5417 def self.conserved return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000856') end
Region of sequence similarity by descent from a common ancestor. (purl.obolibrary.org/obo/SO_0000330)
# File lib/biointerchange/so.rb, line 2301 def self.conserved_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000330') end
X contained_by
Y iff X starts after start of Y and X ends before end of Y. (purl.obolibrary.org/obo/so_2_5_2.obo#contained_by)
# File lib/biointerchange/so.rb, line 41 def self.contained_by return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#contained_by') end
The inverse of contained_by. (purl.obolibrary.org/obo/so_2_5_2.obo#contains)
# File lib/biointerchange/so.rb, line 47 def self.contains return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#contains') end
A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N’s from unavailable bases. (purl.obolibrary.org/obo/SO_0000149)
# File lib/biointerchange/so.rb, line 1211 def self.contig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000149') end
A collection of contigs. (purl.obolibrary.org/obo/SO_0001462)
# File lib/biointerchange/so.rb, line 9031 def self.contig_collection return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001462') end
A DNA
sequencer read which is part of a contig. (purl.obolibrary.org/obo/SO_0000476)
# File lib/biointerchange/so.rb, line 3175 def self.contig_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000476') end
A sequence variant where copies of a feature (CNV) are either increased or decreased. (purl.obolibrary.org/obo/SO_0001563)
# File lib/biointerchange/so.rb, line 9637 def self.copy_number_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001563') end
A sequence variant where copies of a feature are decreased relative to the reference. (purl.obolibrary.org/obo/SO_0001912)
# File lib/biointerchange/so.rb, line 11677 def self.copy_number_decrease return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001912') end
A sequence alteration whereby the copy number of a given regions is greater than the reference sequence. (purl.obolibrary.org/obo/SO_0001742)
# File lib/biointerchange/so.rb, line 10663 def self.copy_number_gain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001742') end
A sequence variant where copies of a feature are increased relative to the reference. (purl.obolibrary.org/obo/SO_0001911)
# File lib/biointerchange/so.rb, line 11671 def self.copy_number_increase return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001911') end
A sequence alteration whereby the copy number of a given region is less than the reference sequence. (purl.obolibrary.org/obo/SO_0001743)
# File lib/biointerchange/so.rb, line 10669 def self.copy_number_loss return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001743') end
A variation that increases or decreases the copy number of a given region. (purl.obolibrary.org/obo/SO_0001019)
# File lib/biointerchange/so.rb, line 6389 def self.copy_number_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001019') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001660)
# File lib/biointerchange/so.rb, line 10171 def self.core_promoter_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001660') end
A cloning vector that is a hybrid of lambda phages and a plasmid that can be propagated as a plasmid or packaged as a phage,since they retain the lambda cos sites. (purl.obolibrary.org/obo/SO_0000156)
# File lib/biointerchange/so.rb, line 1253 def self.cosmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000156') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000765)
# File lib/biointerchange/so.rb, line 4913 def self.cosmid_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000765') end
Binding involving a covalent bond. (purl.obolibrary.org/obo/SO_0001090)
# File lib/biointerchange/so.rb, line 6811 def self.covalent_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001090') end
A nucleotide match against a sequence from another organism. (purl.obolibrary.org/obo/SO_0000177)
# File lib/biointerchange/so.rb, line 1379 def self.cross_genome_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000177') end
Posttranslationally formed amino acid bonds. (purl.obolibrary.org/obo/SO_0001087)
# File lib/biointerchange/so.rb, line 6793 def self.cross_link return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001087') end
A feature_attribute
describing a feature that is not manifest under normal conditions. (purl.obolibrary.org/obo/SO_0000976)
# File lib/biointerchange/so.rb, line 6131 def self.cryptic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000976') end
A gene that is not transcribed under normal conditions and is not critical to normal cellular functioning. (purl.obolibrary.org/obo/SO_0001431)
# File lib/biointerchange/so.rb, line 8845 def self.cryptic_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001431') end
A remnant of an integrated prophage in the host genome or an "island" in the host genome that includes phage like-genes. (GOC:jl) (purl.obolibrary.org/obo/SO_0001007)
# File lib/biointerchange/so.rb, line 6317 def self.cryptic_prophage return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001007') end
A sequence variant whereby a new splice site is created due to the activation of a new acceptor. (purl.obolibrary.org/obo/SO_0001570)
# File lib/biointerchange/so.rb, line 9679 def self.cryptic_splice_acceptor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001570') end
A sequence variant whereby a new splice site is created due to the activation of a new donor. (purl.obolibrary.org/obo/SO_0001571)
# File lib/biointerchange/so.rb, line 9685 def self.cryptic_splice_donor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001571') end
A splice site that is in part of the transcript not normally spliced. They occur via mutation or transcriptional error. (purl.obolibrary.org/obo/SO_0001533)
# File lib/biointerchange/so.rb, line 9457 def self.cryptic_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001533') end
A sequence variant causing a new (functional) splice site. (purl.obolibrary.org/obo/SO_0001569)
# File lib/biointerchange/so.rb, line 9673 def self.cryptic_splice_site_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001569') end
A maxicircle gene so extensively edited that it cannot be matched to its edited mRNA sequence. (purl.obolibrary.org/obo/SO_1001196)
# File lib/biointerchange/so.rb, line 13439 def self.cryptogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001196') end
A gene from chloroplast sequence. (purl.obolibrary.org/obo/SO_0000092)
# File lib/biointerchange/so.rb, line 869 def self.ct_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000092') end
A chromosome originating in a cyanelle. (purl.obolibrary.org/obo/SO_0000822)
# File lib/biointerchange/so.rb, line 5225 def self.cyanelle_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000822') end
A gene from cyanelle sequence. (purl.obolibrary.org/obo/SO_0000094)
# File lib/biointerchange/so.rb, line 881 def self.cyanelle_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000094') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000746)
# File lib/biointerchange/so.rb, line 4799 def self.cyanelle_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000746') end
A chromosomal translocation whereby three breaks occurred in three different chromosomes. The centric segment resulting from the first break listed is joined to the acentric segment resulting from the second, rather than the third. (purl.obolibrary.org/obo/SO_1000150)
# File lib/biointerchange/so.rb, line 13235 def self.cyclic_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000150') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001447)
# File lib/biointerchange/so.rb, line 8941 def self.cysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001447') end
A primary transcript encoding cysteinyl tRNA (SO:0000258). (purl.obolibrary.org/obo/SO_0000215)
# File lib/biointerchange/so.rb, line 1611 def self.cysteine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000215') end
A tRNA sequence that has a cysteine anticodon, and a 3’ cysteine binding region. (purl.obolibrary.org/obo/SO_0000258)
# File lib/biointerchange/so.rb, line 1869 def self.cysteinyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000258') end
Polypeptide region that is localized inside the cytoplasm. (purl.obolibrary.org/obo/SO_0001073)
# File lib/biointerchange/so.rb, line 6709 def self.cytoplasmic_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001073') end
A primer with one or more mis-matches to the DNA
template corresponding to a position within a restriction enzyme recognition site. (purl.obolibrary.org/obo/SO_0001699)
# File lib/biointerchange/so.rb, line 10405 def self.dCAPS_primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001699') end
The sequence referred to by an entry in a databank such as Genbank or SwissProt. (purl.obolibrary.org/obo/SO_2000061)
# File lib/biointerchange/so.rb, line 13667 def self.databank_entry return RDF::URI.new('http://purl.obolibrary.org/obo/SO_2000061') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001781)
# File lib/biointerchange/so.rb, line 10897 def self.de_novo_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001781') end
A non-functional descendant of an exon. (purl.obolibrary.org/obo/SO_0000464)
# File lib/biointerchange/so.rb, line 3103 def self.decayed_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000464') end
A transcript processing variant whereby polyadenylation of the encoded transcript is decreased with respect to the reference. (purl.obolibrary.org/obo/SO_0001803)
# File lib/biointerchange/so.rb, line 11023 def self.decreased_polyadenylation_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001803') end
A sequence variant that increases the level of mature, spliced and processed RNA
with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001541)
# File lib/biointerchange/so.rb, line 9505 def self.decreased_transcript_level_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001541') end
A sequence variant that decreases transcript stability with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001547)
# File lib/biointerchange/so.rb, line 9541 def self.decreased_transcript_stability_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001547') end
A sequence variant that decreases the rate of transcription with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001552)
# File lib/biointerchange/so.rb, line 9571 def self.decreased_transcription_rate_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001552') end
A sequence variant which decreases the translational product level with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001555)
# File lib/biointerchange/so.rb, line 9589 def self.decreased_translational_product_level return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001555') end
An island that contains genes for integration/excision and the gene and site for the initiation of intercellular transfer by conjugation. It can be complemented for transfer by a conjugative transposon. (purl.obolibrary.org/obo/SO_0001049)
# File lib/biointerchange/so.rb, line 6569 def self.defective_conjugative_transposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001049') end
An interchromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining. (purl.obolibrary.org/obo/SO_0000063)
# File lib/biointerchange/so.rb, line 695 def self.deficient_interchromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000063') end
An intrachromosomal transposition whereby a translocation in which one of the four broken ends loses a segment before re-joining. (purl.obolibrary.org/obo/SO_0000062)
# File lib/biointerchange/so.rb, line 689 def self.deficient_intrachromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000062') end
A chromosomal deletion whereby three breaks occur in the same chromosome; one central region is lost, and the other is inverted. (purl.obolibrary.org/obo/SO_1000171)
# File lib/biointerchange/so.rb, line 13319 def self.deficient_inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000171') end
A chromosomal deletion whereby a translocation occurs in which one of the four broken ends loses a segment before re-joining. (purl.obolibrary.org/obo/SO_1000147)
# File lib/biointerchange/so.rb, line 13217 def self.deficient_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000147') end
To remove a subsection of sequence. (purl.obolibrary.org/obo/SO_0000045)
# File lib/biointerchange/so.rb, line 579 def self.delete return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000045') end
An edit to delete a uridine. (purl.obolibrary.org/obo/SO_0000918)
# File lib/biointerchange/so.rb, line 5789 def self.delete_U return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000918') end
The point at which one or more contiguous nucleotides were excised. (purl.obolibrary.org/obo/SO_0000159)
# File lib/biointerchange/so.rb, line 1271 def self.deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000159') end
The point within a chromosome where a deletion begins or ends. (purl.obolibrary.org/obo/SO_0001415)
# File lib/biointerchange/so.rb, line 8755 def self.deletion_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001415') end
The space between two bases in a sequence which marks the position where a deletion has occurred. (purl.obolibrary.org/obo/SO_0000687)
# File lib/biointerchange/so.rb, line 4445 def self.deletion_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000687') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#derives_from)
# File lib/biointerchange/so.rb, line 53 def self.derives_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#derives_from') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000546)
# File lib/biointerchange/so.rb, line 3595 def self.designed_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000546') end
A conserved polypeptide motif that can be recognized by both Fizzy/Cdc20- and FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is RXXLXXXXN. (purl.obolibrary.org/obo/SO_0001805)
# File lib/biointerchange/so.rb, line 11035 def self.destruction_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001805') end
An autosynaptic chromosome carrying the two right (D = dextro) telomeres. (purl.obolibrary.org/obo/SO_1000142)
# File lib/biointerchange/so.rb, line 13187 def self.dexstrosynaptic_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000142') end
A repeat region which is part of the regional centromere outer repeat region. (purl.obolibrary.org/obo/SO_0001898)
# File lib/biointerchange/so.rb, line 11593 def self.dg_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001898') end
A repeat region which is part of the regional centromere outer repeat region. (purl.obolibrary.org/obo/SO_0001899)
# File lib/biointerchange/so.rb, line 11599 def self.dh_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001899') end
An attribute describing a sequence that contains the code for two gene products. (purl.obolibrary.org/obo/SO_0000879)
# File lib/biointerchange/so.rb, line 5555 def self.dicistronic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000879') end
An mRNA that has the quality dicistronic. (purl.obolibrary.org/obo/SO_0000716)
# File lib/biointerchange/so.rb, line 4619 def self.dicistronic_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000716') end
A primary transcript that has the quality dicistronic. (purl.obolibrary.org/obo/SO_1001197)
# File lib/biointerchange/so.rb, line 13445 def self.dicistronic_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001197') end
A transcript that is dicistronic. (purl.obolibrary.org/obo/SO_0000079)
# File lib/biointerchange/so.rb, line 791 def self.dicistronic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000079') end
A site at which replicated bacterial circular chromosomes are decatenated by site specific resolvase. (purl.obolibrary.org/obo/SO_0000949)
# File lib/biointerchange/so.rb, line 5975 def self.dif_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000949') end
A modified RNA
base in which the 5,6-dihydrouracil is bound to the ribose ring. (purl.obolibrary.org/obo/SO_0001228)
# File lib/biointerchange/so.rb, line 7639 def self.dihydrouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001228') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000290)
# File lib/biointerchange/so.rb, line 2061 def self.dinucleotide_repeat_microsatellite_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000290') end
A diplotype is a pair of haplotypes from a given individual. It is a genotype where the phase is known. (purl.obolibrary.org/obo/SO_0001028)
# File lib/biointerchange/so.rb, line 6443 def self.diplotype return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001028') end
A quality of an insertion where the insert is not in a cytologically inverted orientation. (purl.obolibrary.org/obo/SO_0001514)
# File lib/biointerchange/so.rb, line 9343 def self.direct return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001514') end
A repeat where the same sequence is repeated in the same direction. Example: GCTGA—–GCTGA. (purl.obolibrary.org/obo/SO_0000314)
# File lib/biointerchange/so.rb, line 2205 def self.direct_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000314') end
A tandem duplication where the individual regions are in the same orientation. (purl.obolibrary.org/obo/SO_1000039)
# File lib/biointerchange/so.rb, line 12665 def self.direct_tandem_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000039') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001029)
# File lib/biointerchange/so.rb, line 6449 def self.direction_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001029') end
X is disconnected_from
Y iff it is not the case that X overlaps Y. (purl.obolibrary.org/obo/so_2_5_2.obo#disconnected_from)
# File lib/biointerchange/so.rb, line 59 def self.disconnected_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#disconnected_from') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001771)
# File lib/biointerchange/so.rb, line 10837 def self.disease_associated_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001771') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001772)
# File lib/biointerchange/so.rb, line 10843 def self.disease_causing_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001772') end
A repeat that is located at dispersed sites in the genome. (purl.obolibrary.org/obo/SO_0000658)
# File lib/biointerchange/so.rb, line 4271 def self.dispersed_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000658') end
An inframe decrease in cds length that deletes bases from the coding sequence starting within an existing codon. (purl.obolibrary.org/obo/SO_0001826)
# File lib/biointerchange/so.rb, line 11161 def self.disruptive_inframe_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001826') end
An inframe_increase_in_cds_length that inserts one or more codons into the coding sequence within an existing codon. (purl.obolibrary.org/obo/SO_0001824)
# File lib/biointerchange/so.rb, line 11149 def self.disruptive_inframe_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001824') end
A duplication of the distal region of a chromosome. (purl.obolibrary.org/obo/SO_0001928)
# File lib/biointerchange/so.rb, line 11773 def self.distal_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001928') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001670)
# File lib/biointerchange/so.rb, line 10231 def self.distal_promoter_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001670') end
A recoding signal that is found many hundreds of nucleotides 3’ of a redefined stop codon. (purl.obolibrary.org/obo/SO_1001287)
# File lib/biointerchange/so.rb, line 13655 def self.distant_three_prime_recoding_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001287') end
The covalent bond between sulfur atoms that binds two peptide chains or different parts of one peptide chain and is a structural determinant in many protein molecules. (purl.obolibrary.org/obo/SO_0001088)
# File lib/biointerchange/so.rb, line 6799 def self.disulfide_bond return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001088') end
Attributes added to describe the different kinds of replicon. SO
workshop, September 2006. (purl.obolibrary.org/obo/SO_0000985)
# File lib/biointerchange/so.rb, line 6185 def self.double return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000985') end
Structural unit composed of a self-replicating, double-stranded DNA
molecule. (purl.obolibrary.org/obo/SO_0000955)
# File lib/biointerchange/so.rb, line 6011 def self.double_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000955') end
Structural unit composed of a self-replicating, double-stranded RNA
molecule. (purl.obolibrary.org/obo/SO_0000965)
# File lib/biointerchange/so.rb, line 6071 def self.double_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000965') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000758)
# File lib/biointerchange/so.rb, line 4871 def self.double_stranded_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000758') end
A sequence variant located 3’ of a gene. (purl.obolibrary.org/obo/SO_0001632)
# File lib/biointerchange/so.rb, line 10027 def self.downstream_gene_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001632') end
Requested by Graham Ritchie, EBI/Sanger. (purl.obolibrary.org/obo/SO_0001987)
# File lib/biointerchange/so.rb, line 12125 def self.downstream_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001987') end
A double stranded oligonucleotide. (purl.obolibrary.org/obo/SO_0000442)
# File lib/biointerchange/so.rb, line 2971 def self.ds_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000442') end
A pseudogene that arose via gene duplication. Generally duplicated pseudogenes have the same structure as the original gene, including intron-exon structure and some regulatory sequence. (purl.obolibrary.org/obo/SO_0001758)
# File lib/biointerchange/so.rb, line 10759 def self.duplicated_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001758') end
An insertion which derives from, or is identical in sequence to, nucleotides present at a known location in the genome. (purl.obolibrary.org/obo/SO_1000035)
# File lib/biointerchange/so.rb, line 12641 def self.duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000035') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001523)
# File lib/biointerchange/so.rb, line 9397 def self.duplication_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001523') end
A read produced by the dye terminator method of sequencing. (purl.obolibrary.org/obo/SO_0001423)
# File lib/biointerchange/so.rb, line 8803 def self.dye_terminator_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001423') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000916)
# File lib/biointerchange/so.rb, line 5777 def self.edit_operation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000916') end
An attribute describing a sequence that is modified by editing. (purl.obolibrary.org/obo/SO_0000116)
# File lib/biointerchange/so.rb, line 1013 def self.edited return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000116') end
A CDS
that is edited. (purl.obolibrary.org/obo/SO_0000935)
# File lib/biointerchange/so.rb, line 5891 def self.edited_CDS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000935') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000600)
# File lib/biointerchange/so.rb, line 3923 def self.edited_by_A_to_I_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000600') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000598)
# File lib/biointerchange/so.rb, line 3911 def self.edited_by_C_insertion_and_dinucleotide_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000598') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000599)
# File lib/biointerchange/so.rb, line 3917 def self.edited_by_C_to_U_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000599') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000601)
# File lib/biointerchange/so.rb, line 3929 def self.edited_by_G_addition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000601') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#edited_from)
# File lib/biointerchange/so.rb, line 65 def self.edited_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#edited_from') end
An mRNA that is edited. (purl.obolibrary.org/obo/SO_0000929)
# File lib/biointerchange/so.rb, line 5855 def self.edited_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000929') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#edited_to)
# File lib/biointerchange/so.rb, line 71 def self.edited_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#edited_to') end
A transcript that is edited. (purl.obolibrary.org/obo/SO_0000873)
# File lib/biointerchange/so.rb, line 5519 def self.edited_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000873') end
A transcript that has been edited by A to I substitution. (purl.obolibrary.org/obo/SO_0000874)
# File lib/biointerchange/so.rb, line 5525 def self.edited_transcript_by_A_to_I_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000874') end
A locatable feature on a transcript that is edited. (purl.obolibrary.org/obo/SO_0000579)
# File lib/biointerchange/so.rb, line 3797 def self.edited_transcript_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000579') end
Edited mRNA sequence mediated by a single guide RNA
(SO:0000602). (purl.obolibrary.org/obo/SO_0000604)
# File lib/biointerchange/so.rb, line 3947 def self.editing_block return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000604') end
Edited mRNA sequence mediated by two or more overlapping guide RNAs (SO:0000602). (purl.obolibrary.org/obo/SO_0000606)
# File lib/biointerchange/so.rb, line 3959 def self.editing_domain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000606') end
A transcript processing variant whereby the process of editing is disrupted with respect to the reference. (purl.obolibrary.org/obo/SO_0001544)
# File lib/biointerchange/so.rb, line 9523 def self.editing_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001544') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000251)
# File lib/biointerchange/so.rb, line 1827 def self.eight_cutter_restriction_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000251') end
A sequence variant with in the CDS
that causes in frame elongation of the resulting polypeptide sequence at the C terminus. (purl.obolibrary.org/obo/SO_0001612)
# File lib/biointerchange/so.rb, line 9913 def self.elongated_in_frame_polypeptide_C_terminal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001612') end
A sequence variant with in the CDS
that causes in frame elongation of the resulting polypeptide sequence at the N terminus. (purl.obolibrary.org/obo/SO_0001614)
# File lib/biointerchange/so.rb, line 9925 def self.elongated_in_frame_polypeptide_N_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001614') end
A sequence variant with in the CDS
that causes out of frame elongation of the resulting polypeptide sequence at the C terminus. (purl.obolibrary.org/obo/SO_0001613)
# File lib/biointerchange/so.rb, line 9919 def self.elongated_out_of_frame_polypeptide_C_terminal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001613') end
A sequence variant with in the CDS
that causes out of frame elongation of the resulting polypeptide sequence at the N terminus. (purl.obolibrary.org/obo/SO_0001615)
# File lib/biointerchange/so.rb, line 9931 def self.elongated_out_of_frame_polypeptide_N_terminal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001615') end
A sequence variant with in the CDS
that causes elongation of the resulting polypeptide sequence. (purl.obolibrary.org/obo/SO_0001609)
# File lib/biointerchange/so.rb, line 9895 def self.elongated_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001609') end
A sequence variant with in the CDS
that causes elongation of the resulting polypeptide sequence at the C terminus. (purl.obolibrary.org/obo/SO_0001610)
# File lib/biointerchange/so.rb, line 9901 def self.elongated_polypeptide_C_terminal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001610') end
A sequence variant with in the CDS
that causes elongation of the resulting polypeptide sequence at the N terminus. (purl.obolibrary.org/obo/SO_0001611)
# File lib/biointerchange/so.rb, line 9907 def self.elongated_polypeptide_N_terminal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001611') end
A gene that is alternately spliced, but encodes only one polypeptide. (purl.obolibrary.org/obo/SO_1001188)
# File lib/biointerchange/so.rb, line 13391 def self.encodes_1_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001188') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001241)
# File lib/biointerchange/so.rb, line 7717 def self.encodes_alternate_transcription_start_sites return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001241') end
A gene that encodes more than one transcript. (purl.obolibrary.org/obo/SO_0000463)
# File lib/biointerchange/so.rb, line 3097 def self.encodes_alternately_spliced_transcripts return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000463') end
A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different stop codons. (purl.obolibrary.org/obo/SO_1001190)
# File lib/biointerchange/so.rb, line 13403 def self.encodes_different_polypeptides_different_stop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001190') end
A gene that is alternately spliced, and encodes more than one polypeptide, that do not have overlapping peptide sequences. (purl.obolibrary.org/obo/SO_1001192)
# File lib/biointerchange/so.rb, line 13415 def self.encodes_disjoint_polypeptides return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001192') end
A gene that is alternately spliced, and encodes more than one polypeptide. (purl.obolibrary.org/obo/SO_1001189)
# File lib/biointerchange/so.rb, line 13397 def self.encodes_greater_than_1_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001189') end
A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences. (purl.obolibrary.org/obo/SO_1001195)
# File lib/biointerchange/so.rb, line 13433 def self.encodes_overlapping_peptides return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001195') end
A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start codons. (purl.obolibrary.org/obo/SO_1001191)
# File lib/biointerchange/so.rb, line 13409 def self.encodes_overlapping_peptides_different_start return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001191') end
A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different start and stop codons. (purl.obolibrary.org/obo/SO_1001193)
# File lib/biointerchange/so.rb, line 13421 def self.encodes_overlapping_polypeptides_different_start_and_stop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001193') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000072)
# File lib/biointerchange/so.rb, line 749 def self.end_overlapping_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000072') end
An intron that spliced via endonucleolytic cleavage and ligation rather than transesterification. (purl.obolibrary.org/obo/SO_0001216)
# File lib/biointerchange/so.rb, line 7567 def self.endonuclease_spliced_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001216') end
A polypeptide region that targets a polypeptide to the endosome. (purl.obolibrary.org/obo/SO_0001529)
# File lib/biointerchange/so.rb, line 9433 def self.endosomal_localization_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001529') end
An attribute to describe a region that was modified in vitro. (purl.obolibrary.org/obo/SO_0000783)
# File lib/biointerchange/so.rb, line 5015 def self.engineered return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000783') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000793)
# File lib/biointerchange/so.rb, line 5075 def self.engineered_DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000793') end
An episome that is engineered. (purl.obolibrary.org/obo/SO_0000779)
# File lib/biointerchange/so.rb, line 4991 def self.engineered_episome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000779') end
A gene that is engineered and foreign. (purl.obolibrary.org/obo/SO_0000281)
# File lib/biointerchange/so.rb, line 2007 def self.engineered_foreign_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000281') end
A region that is engineered and foreign. (purl.obolibrary.org/obo/SO_0000805)
# File lib/biointerchange/so.rb, line 5123 def self.engineered_foreign_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000805') end
A repetitive element that is engineered and foreign. (purl.obolibrary.org/obo/SO_0000293)
# File lib/biointerchange/so.rb, line 2079 def self.engineered_foreign_repetitive_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000293') end
A transposable_element
that is engineered and foreign. (purl.obolibrary.org/obo/SO_0000799)
# File lib/biointerchange/so.rb, line 5111 def self.engineered_foreign_transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000799') end
A transposable_element
that is engineered and foreign. (purl.obolibrary.org/obo/SO_0000283)
# File lib/biointerchange/so.rb, line 2019 def self.engineered_foreign_transposable_element_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000283') end
A fusion gene that is engineered. (purl.obolibrary.org/obo/SO_0000288)
# File lib/biointerchange/so.rb, line 2049 def self.engineered_fusion_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000288') end
A gene that is engineered. (purl.obolibrary.org/obo/SO_0000280)
# File lib/biointerchange/so.rb, line 2001 def self.engineered_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000280') end
A clone insert that is engineered. (purl.obolibrary.org/obo/SO_0000915)
# File lib/biointerchange/so.rb, line 5771 def self.engineered_insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000915') end
A plasmid that is engineered. (purl.obolibrary.org/obo/SO_0000637)
# File lib/biointerchange/so.rb, line 4145 def self.engineered_plasmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000637') end
A region that is engineered. (purl.obolibrary.org/obo/SO_0000804)
# File lib/biointerchange/so.rb, line 5117 def self.engineered_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000804') end
A rescue region that is engineered. (purl.obolibrary.org/obo/SO_0000794)
# File lib/biointerchange/so.rb, line 5081 def self.engineered_rescue_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000794') end
A tag that is engineered. (purl.obolibrary.org/obo/SO_0000807)
# File lib/biointerchange/so.rb, line 5135 def self.engineered_tag return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000807') end
TE that has been modified by manipulations in vitro. (purl.obolibrary.org/obo/SO_0000798)
# File lib/biointerchange/so.rb, line 5105 def self.engineered_transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000798') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001057)
# File lib/biointerchange/so.rb, line 6625 def self.enhanceosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001057') end
A cis-acting sequence that increases the utilization of (some) eukaryotic promoters, and can function in either orientation and in any location (upstream or downstream) relative to the promoter. (purl.obolibrary.org/obo/SO_0000165)
# File lib/biointerchange/so.rb, line 1307 def self.enhancer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000165') end
A short ncRNA that is transcribed from an enhancer. May have a regulatory function. (purl.obolibrary.org/obo/SO_0001870)
# File lib/biointerchange/so.rb, line 11425 def self.enhancerRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001870') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000402)
# File lib/biointerchange/so.rb, line 2727 def self.enhancer_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000402') end
A binding site that, in the enhancer region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. (purl.obolibrary.org/obo/SO_0001461)
# File lib/biointerchange/so.rb, line 9025 def self.enhancer_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001461') end
An enhancer bound by a factor. (purl.obolibrary.org/obo/SO_0000166)
# File lib/biointerchange/so.rb, line 1313 def self.enhancer_bound_by_factor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000166') end
An enhancer trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when the expression from a basic minimal promoter is enhanced by genomic enhancer elements. Enhancer traps contain promoter elements and are not usually mutagenic. (purl.obolibrary.org/obo/SO_0001479)
# File lib/biointerchange/so.rb, line 9133 def self.enhancer_trap_construct return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001479') end
An attribute describing the sequence of a transcript that has catalytic activity with or without an associated ribonucleoprotein. (purl.obolibrary.org/obo/SO_0001185)
# File lib/biointerchange/so.rb, line 7381 def self.enzymatic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001185') end
An RNA
sequence that has catalytic activity with or without an associated ribonucleoprotein. (purl.obolibrary.org/obo/SO_0000372)
# File lib/biointerchange/so.rb, line 2547 def self.enzymatic_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000372') end
This attribute describes a gene where heritable changes other than those in the DNA
sequence occur. These changes include: modification to the DNA
(such as DNA
methylation, the covalent modification of cytosine), and post-translational modification of histones. (purl.obolibrary.org/obo/SO_0000133)
# File lib/biointerchange/so.rb, line 1115 def self.epigenetically_modified return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000133') end
A gene that is epigenetically modified. (purl.obolibrary.org/obo/SO_0000898)
# File lib/biointerchange/so.rb, line 5669 def self.epigenetically_modified_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000898') end
A biological region implicated in inherited changes caused by mechanisms other than changes in the underlying DNA
sequence. (purl.obolibrary.org/obo/SO_0001720)
# File lib/biointerchange/so.rb, line 10531 def self.epigenetically_modified_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001720') end
A plasmid that may integrate with a chromosome. (purl.obolibrary.org/obo/SO_0000768)
# File lib/biointerchange/so.rb, line 4925 def self.episome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000768') end
A binding site that, in the molecule, interacts selectively and non-covalently with antibodies, B cells or T cells. (purl.obolibrary.org/obo/SO_0001018)
# File lib/biointerchange/so.rb, line 6383 def self.epitope return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001018') end
Epoxyqueuosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001318)
# File lib/biointerchange/so.rb, line 8173 def self.epoxyqueuosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001318') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000951)
# File lib/biointerchange/so.rb, line 5987 def self.eukaryotic_terminator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000951') end
B is evidence_for_feature
A, if an instance of B supports the existence of A. (purl.obolibrary.org/obo/so_2_5_2.obo#evidence_for_feature)
# File lib/biointerchange/so.rb, line 77 def self.evidence_for_feature return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#evidence_for_feature') end
An attribute describing a sequence is representative of a class of similar sequences. (purl.obolibrary.org/obo/SO_0000864)
# File lib/biointerchange/so.rb, line 5465 def self.exemplar return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000864') end
An exemplar is a representative cDNA sequence for each gene. The exemplar approach is a method that usually involves some initial clustering into gene groups and the subsequent selection of a representative from each gene group. (purl.obolibrary.org/obo/SO_0000734)
# File lib/biointerchange/so.rb, line 4727 def self.exemplar_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000734') end
X is exemplar of Y if X is the best evidence for Y. (purl.obolibrary.org/obo/so_2_5_2.obo#exemplar_of)
# File lib/biointerchange/so.rb, line 83 def self.exemplar_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#exemplar_of') end
A region of the transcript sequence within a gene which is not removed from the primary RNA
transcript by RNA
splicing. (purl.obolibrary.org/obo/SO_0000147)
# File lib/biointerchange/so.rb, line 1199 def self.exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000147') end
The boundary between two exons in a processed transcript. (purl.obolibrary.org/obo/SO_0000333)
# File lib/biointerchange/so.rb, line 2319 def self.exon_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000333') end
A sequence variant whereby an exon is lost from the transcript. (purl.obolibrary.org/obo/SO_0001572)
# File lib/biointerchange/so.rb, line 9691 def self.exon_loss_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001572') end
An exon that is the only exon in a gene. (purl.obolibrary.org/obo/SO_0005845)
# File lib/biointerchange/so.rb, line 12275 def self.exon_of_single_exon_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005845') end
A region of an exon. (purl.obolibrary.org/obo/SO_0000852)
# File lib/biointerchange/so.rb, line 5393 def self.exon_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000852') end
A sequence variant that changes exon sequence. (purl.obolibrary.org/obo/SO_0001791)
# File lib/biointerchange/so.rb, line 10951 def self.exon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001791') end
Exonic splicing enhancers (ESEs) facilitate exon definition by assisting in the recruitment of splicing factors to the adjacent intron. (purl.obolibrary.org/obo/SO_0000683)
# File lib/biointerchange/so.rb, line 4421 def self.exonic_splice_enhancer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000683') end
A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer. (purl.obolibrary.org/obo/SO_0001410)
# File lib/biointerchange/so.rb, line 8725 def self.experimental_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001410') end
An attribute of an experimentally derived feature. (purl.obolibrary.org/obo/SO_0001684)
# File lib/biointerchange/so.rb, line 10315 def self.experimental_feature_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001684') end
A region of sequence implicated in an experimental result. (purl.obolibrary.org/obo/SO_0000703)
# File lib/biointerchange/so.rb, line 4541 def self.experimental_result_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000703') end
A region that has been implicated in binding although the exact coordinates of binding may be unknown. (purl.obolibrary.org/obo/SO_0001696)
# File lib/biointerchange/so.rb, line 10387 def self.experimentally_defined_binding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001696') end
Attribute to describe a feature that has been experimentally verified. (purl.obolibrary.org/obo/SO_0000312)
# File lib/biointerchange/so.rb, line 2193 def self.experimentally_determined return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000312') end
A sequence assembly derived from expressed sequences. (purl.obolibrary.org/obo/SO_0001428)
# File lib/biointerchange/so.rb, line 8833 def self.expressed_sequence_assembly return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001428') end
A match to an EST
or cDNA sequence. (purl.obolibrary.org/obo/SO_0000102)
# File lib/biointerchange/so.rb, line 929 def self.expressed_sequence_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000102') end
Intronic positions associated with cis-splicing. Contains the first and second positions immediately before the exon and the first, second and fifth positions immediately after. (purl.obolibrary.org/obo/SO_0001993)
# File lib/biointerchange/so.rb, line 12161 def self.extended_cis_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001993') end
Region of intronic sequence within 10 bases of an exon. (purl.obolibrary.org/obo/SO_0001996)
# File lib/biointerchange/so.rb, line 12179 def self.extended_intronic_splice_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001996') end
A sequence variant occurring in the intron, within 10 bases of exon. (purl.obolibrary.org/obo/SO_0001995)
# File lib/biointerchange/so.rb, line 12173 def self.extended_intronic_splice_region_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001995') end
Non-coding regions of DNA
that precede the sequence that codes for the ribosomal RNA
. (purl.obolibrary.org/obo/SO_0000640)
# File lib/biointerchange/so.rb, line 4163 def self.external_transcribed_spacer_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000640') end
An MGE that is not integrated into the host chromosome. (purl.obolibrary.org/obo/SO_0001038)
# File lib/biointerchange/so.rb, line 6503 def self.extrachromosomal_mobile_genetic_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001038') end
Polypeptide region that is localized outside of a lipid bilayer. (purl.obolibrary.org/obo/SO_0001072)
# File lib/biointerchange/so.rb, line 6703 def self.extramembrane_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001072') end
A sequence variant, caused by an alteration of the genomic sequence, where the deletion, is greater than the extent of the underlying genomic features. (purl.obolibrary.org/obo/SO_0001879)
# File lib/biointerchange/so.rb, line 11479 def self.feature_ablation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001879') end
A sequence variant, caused by an alteration of the genomic sequence, where the structural change, an amplification of sequence, is greater than the extent of the underlying genomic features. (purl.obolibrary.org/obo/SO_0001880)
# File lib/biointerchange/so.rb, line 11485 def self.feature_amplification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001880') end
An attribute describing a located_sequence_feature. (purl.obolibrary.org/obo/SO_0000733)
# File lib/biointerchange/so.rb, line 4721 def self.feature_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000733') end
A sequence variant that causes the extension of a genomic feature, with regard to the reference sequence. (purl.obolibrary.org/obo/SO_0001907)
# File lib/biointerchange/so.rb, line 11647 def self.feature_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001907') end
A sequence variant, caused by an alteration of the genomic sequence, where a deletion fuses genomic features. (purl.obolibrary.org/obo/SO_0001882)
# File lib/biointerchange/so.rb, line 11497 def self.feature_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001882') end
A sequence variant, caused by an alteration of the genomic sequence, where the structural change, a translocation, is greater than the extent of the underlying genomic features. (purl.obolibrary.org/obo/SO_0001881)
# File lib/biointerchange/so.rb, line 11491 def self.feature_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001881') end
A sequence variant that causes the reduction of a genomic feature, with regard to the reference sequence. (purl.obolibrary.org/obo/SO_0001906)
# File lib/biointerchange/so.rb, line 11641 def self.feature_truncation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001906') end
A sequence variant that falls entirely or partially within a genomic feature. (purl.obolibrary.org/obo/SO_0001878)
# File lib/biointerchange/so.rb, line 11473 def self.feature_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001878') end
A fingerprint_map
is a physical map composed of restriction fragments. (purl.obolibrary.org/obo/SO_0001250)
# File lib/biointerchange/so.rb, line 7765 def self.fingerprint_map return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001250') end
Xy is finished_by
Y if Y part of X, and X and Y share a 3’ boundary. (purl.obolibrary.org/obo/so_2_5_2.obo#finished_by)
# File lib/biointerchange/so.rb, line 89 def self.finished_by return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#finished_by') end
The status of a whole genome sequence, with less than 1 error per 100,000 base pairs. (purl.obolibrary.org/obo/SO_0001491)
# File lib/biointerchange/so.rb, line 9205 def self.finished_genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001491') end
X finishes Y if X is part_of
Y and X and Y share a 3’ or C terminal boundary. (purl.obolibrary.org/obo/so_2_5_2.obo#finishes)
# File lib/biointerchange/so.rb, line 95 def self.finishes return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#finishes') end
5_aminomethyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001363)
# File lib/biointerchange/so.rb, line 8443 def self.five_aminomethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001363') end
5_carbamoylmethyl_2_prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001368)
# File lib/biointerchange/so.rb, line 8473 def self.five_carbamoylmethyl_two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001368') end
5_carbamoylmethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001367)
# File lib/biointerchange/so.rb, line 8467 def self.five_carbamoylmethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001367') end
5_carboxyhydroxymethyl_uridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001358)
# File lib/biointerchange/so.rb, line 8413 def self.five_carboxyhydroxymethyl_uridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001358') end
5_carboxyhydroxymethyl_uridine_methyl_ester is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001359)
# File lib/biointerchange/so.rb, line 8419 def self.five_carboxyhydroxymethyl_uridine_methyl_ester return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001359') end
5_carboxymethylaminomethyl_2_prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001370)
# File lib/biointerchange/so.rb, line 8485 def self.five_carboxymethylaminomethyl_two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001370') end
5_carboxymethylaminomethyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001371)
# File lib/biointerchange/so.rb, line 8491 def self.five_carboxymethylaminomethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001371') end
5_carboxymethylaminomethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001369)
# File lib/biointerchange/so.rb, line 8479 def self.five_carboxymethylaminomethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001369') end
5_carboxymethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001374)
# File lib/biointerchange/so.rb, line 8509 def self.five_carboxymethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001374') end
5-formyl-2’-O-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001293)
# File lib/biointerchange/so.rb, line 8023 def self.five_formyl_two_prime_O_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001293') end
5-formylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001286)
# File lib/biointerchange/so.rb, line 7981 def self.five_formylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001286') end
5-hydroxymethylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001292)
# File lib/biointerchange/so.rb, line 8017 def self.five_hydroxymethylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001292') end
5_hydroxyuridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001354)
# File lib/biointerchange/so.rb, line 8389 def self.five_hydroxyuridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001354') end
5_isopentenylaminomethyl_2prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001382)
# File lib/biointerchange/so.rb, line 8557 def self.five_isopentenylaminomethyl_two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001382') end
5_isopentenylaminomethyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001381)
# File lib/biointerchange/so.rb, line 8551 def self.five_isopentenylaminomethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001381') end
5_isopentenylaminomethyl_uridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001380)
# File lib/biointerchange/so.rb, line 8545 def self.five_isopentenylaminomethyl_uridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001380') end
Five_methoxycarbonylmethyl_2_prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001361)
# File lib/biointerchange/so.rb, line 8431 def self.five_methoxycarbonylmethyl_two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001361') end
5_methoxycarbonylmethyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001362)
# File lib/biointerchange/so.rb, line 8437 def self.five_methoxycarbonylmethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001362') end
Five_methoxycarbonylmethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001360)
# File lib/biointerchange/so.rb, line 8425 def self.five_methoxycarbonylmethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001360') end
5_methoxyuridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001355)
# File lib/biointerchange/so.rb, line 8395 def self.five_methoxyuridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001355') end
5_methyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001351)
# File lib/biointerchange/so.rb, line 8371 def self.five_methyl_2_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001351') end
5_methylaminomethyl_2_selenouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001366)
# File lib/biointerchange/so.rb, line 8461 def self.five_methylaminomethyl_two_selenouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001366') end
5_methylaminomethyl_2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001365)
# File lib/biointerchange/so.rb, line 8455 def self.five_methylaminomethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001365') end
5_methylaminomethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001364)
# File lib/biointerchange/so.rb, line 8449 def self.five_methylaminomethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001364') end
5-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001282)
# File lib/biointerchange/so.rb, line 7957 def self.five_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001282') end
5_methyldihydrouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001376)
# File lib/biointerchange/so.rb, line 8521 def self.five_methyldihydrouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001376') end
5_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001344)
# File lib/biointerchange/so.rb, line 8329 def self.five_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001344') end
7 nucleotide recombination site (e.g. CACTGTG), part of a 5’ D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000496)
# File lib/biointerchange/so.rb, line 3295 def self.five_prime_D_heptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000496') end
9 nucleotide recombination site (e.g. GGTTTTTGT), part of a five_prime_D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000497)
# File lib/biointerchange/so.rb, line 3301 def self.five_prime_D_nonamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000497') end
Recombination signal of an immunoglobulin/T-cell receptor gene, including the 5’ D-nonamer (SO:0000497), 5’ D-spacer (SO:0000498), and 5’ D-heptamer (SO:0000396) in 5’ of the D-region of a D-gene, or in 5’ of the D-region of DJ-gene. (purl.obolibrary.org/obo/SO_0000556)
# File lib/biointerchange/so.rb, line 3659 def self.five_prime_D_recombination_signal_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000556') end
12 or 23 nucleotide spacer between the 5’ D-heptamer (SO:0000496) and 5’ D-nonamer (SO:0000497) of a 5’ D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000498)
# File lib/biointerchange/so.rb, line 3307 def self.five_prime_D_spacer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000498') end
An EST
read from the 5’ end of a transcript that usually codes for a protein. These regions tend to be conserved across species and do not change much within a gene family. (purl.obolibrary.org/obo/SO_0001208)
# File lib/biointerchange/so.rb, line 7519 def self.five_prime_EST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001208') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000425)
# File lib/biointerchange/so.rb, line 2865 def self.five_prime_LTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000425') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000850)
# File lib/biointerchange/so.rb, line 5381 def self.five_prime_LTR_component return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000850') end
A tag produced from a single sequencing read from a 5’-RACE product; typically a few hundred base pairs long. (purl.obolibrary.org/obo/SO_0001469)
# File lib/biointerchange/so.rb, line 9073 def self.five_prime_RST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001469') end
An UST
located in the 5’UTR of a protein-coding transcript. (purl.obolibrary.org/obo/SO_0001466)
# File lib/biointerchange/so.rb, line 9055 def self.five_prime_UST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001466') end
A region at the 5’ end of a mature transcript (preceding the initiation codon) that is not translated into a protein. (purl.obolibrary.org/obo/SO_0000204)
# File lib/biointerchange/so.rb, line 1545 def self.five_prime_UTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000204') end
An intron located in the 5’ UTR
. (purl.obolibrary.org/obo/SO_0000447)
# File lib/biointerchange/so.rb, line 3001 def self.five_prime_UTR_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000447') end
A 5’ UTR
variant where a premature start codon is moved. (purl.obolibrary.org/obo/SO_0001990)
# File lib/biointerchange/so.rb, line 12143 def self.five_prime_UTR_premature_start_codon_location_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001990') end
Intronic 2 bp region bordering the exon, at the 5’ edge of the intron. A splice_site
that is downstream_adjacent_to exon and starts intron. (purl.obolibrary.org/obo/SO_0000163)
# File lib/biointerchange/so.rb, line 1295 def self.five_prime_cis_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000163') end
5’ most region of a precursor transcript that is clipped off during processing. (purl.obolibrary.org/obo/SO_0000555)
# File lib/biointerchange/so.rb, line 3653 def self.five_prime_clip return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000555') end
The 5’ most coding exon. (purl.obolibrary.org/obo/SO_0000200)
# File lib/biointerchange/so.rb, line 1521 def self.five_prime_coding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000200') end
The sequence of the five_prime_coding_exon
that codes for protein. (purl.obolibrary.org/obo/SO_0000196)
# File lib/biointerchange/so.rb, line 1497 def self.five_prime_coding_exon_coding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000196') end
The sequence of the 5’ exon preceding the start codon. (purl.obolibrary.org/obo/SO_0000486)
# File lib/biointerchange/so.rb, line 3235 def self.five_prime_coding_exon_noncoding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000486') end
An attribute to describe a gene when the five prime region overlaps with another gene’s five prime region. (purl.obolibrary.org/obo/SO_0000074)
# File lib/biointerchange/so.rb, line 761 def self.five_prime_five_prime_overlap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000074') end
A flanking region located five prime of a specific region. (purl.obolibrary.org/obo/SO_0001416)
# File lib/biointerchange/so.rb, line 8761 def self.five_prime_flanking_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001416') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000190)
# File lib/biointerchange/so.rb, line 1461 def self.five_prime_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000190') end
Non-coding exon in the 5’ UTR
. (purl.obolibrary.org/obo/SO_0000445)
# File lib/biointerchange/so.rb, line 2989 def self.five_prime_noncoding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000445') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000629)
# File lib/biointerchange/so.rb, line 4097 def self.five_prime_open_reading_frame return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000629') end
The recoding stimulatory signal located upstream of the recoding site. (purl.obolibrary.org/obo/SO_1001280)
# File lib/biointerchange/so.rb, line 13613 def self.five_prime_recoding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001280') end
The restriction enzyme cleavage junction on the 5’ strand of the nucleotide sequence. (purl.obolibrary.org/obo/SO_0001689)
# File lib/biointerchange/so.rb, line 10345 def self.five_prime_restriction_enzyme_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001689') end
A restriction enzyme recognition site that, when cleaved, results in 5 prime overhangs. (purl.obolibrary.org/obo/SO_0001975)
# File lib/biointerchange/so.rb, line 12059 def self.five_prime_sticky_end_restriction_enzyme_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001975') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000420)
# File lib/biointerchange/so.rb, line 2835 def self.five_prime_terminal_inverted_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000420') end
An attribute to describe a gene when the five prime region overlaps with another gene’s 3’ region. (purl.obolibrary.org/obo/SO_0000073)
# File lib/biointerchange/so.rb, line 755 def self.five_prime_three_prime_overlap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000073') end
5_taurinomethyl_2_thiouridineis a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001379)
# File lib/biointerchange/so.rb, line 8539 def self.five_taurinomethyl_two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001379') end
5_taurinomethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001378)
# File lib/biointerchange/so.rb, line 8533 def self.five_taurinomethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001378') end
5,2’-O-dimethylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001287)
# File lib/biointerchange/so.rb, line 7987 def self.five_two_prime_O_dimethylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001287') end
5_2_prime_O_dimethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001346)
# File lib/biointerchange/so.rb, line 8341 def self.five_two_prime_O_dimethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001346') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001768)
# File lib/biointerchange/so.rb, line 10819 def self.fixed_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001768') end
An attribute describing a region that is bounded either side by a particular kind of region. (purl.obolibrary.org/obo/SO_0000357)
# File lib/biointerchange/so.rb, line 2463 def self.flanked return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000357') end
The sequences extending on either side of a specific region. (purl.obolibrary.org/obo/SO_0000239)
# File lib/biointerchange/so.rb, line 1755 def self.flanking_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000239') end
Four base pair sequence immediately downstream of the redefined region. The redefined region is a frameshift site. The quadruplet is 2 overlapping codons. (purl.obolibrary.org/obo/SO_1001281)
# File lib/biointerchange/so.rb, line 13619 def self.flanking_three_prime_quadruplet_recoding_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001281') end
An attribute describing sequence that is flanked by Lox-P sites. (purl.obolibrary.org/obo/SO_0000359)
# File lib/biointerchange/so.rb, line 2469 def self.floxed return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000359') end
A transgene that is floxed. (purl.obolibrary.org/obo/SO_0000363)
# File lib/biointerchange/so.rb, line 2493 def self.floxed_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000363') end
A transposable element with extensive secondary structure, characterized by large modular imperfect long inverted repeats. (purl.obolibrary.org/obo/SO_0000238)
# File lib/biointerchange/so.rb, line 1749 def self.foldback_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000238') end
An attribute to describe a region from another species. (purl.obolibrary.org/obo/SO_0000784)
# File lib/biointerchange/so.rb, line 5021 def self.foreign return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000784') end
A gene that is foreign. (purl.obolibrary.org/obo/SO_0000285)
# File lib/biointerchange/so.rb, line 2031 def self.foreign_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000285') end
A transposable element that is foreign. (purl.obolibrary.org/obo/SO_0000720)
# File lib/biointerchange/so.rb, line 4643 def self.foreign_transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000720') end
A promoter element with consensus sequence TTTRTTTACA, bound by transcription factors with a forkhead DNA-binding domain. (purl.obolibrary.org/obo/SO_0001847)
# File lib/biointerchange/so.rb, line 11287 def self.forkhead_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001847') end
Forward is an attribute of the feature, where the feature is in the 5’ to 3’ direction. (purl.obolibrary.org/obo/SO_0001030)
# File lib/biointerchange/so.rb, line 6455 def self.forward return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001030') end
A single stranded oligo used for polymerase chain reaction. (purl.obolibrary.org/obo/SO_0000121)
# File lib/biointerchange/so.rb, line 1043 def self.forward_primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000121') end
A cloning vector that utilizes the E. coli F factor. (purl.obolibrary.org/obo/SO_0000158)
# File lib/biointerchange/so.rb, line 1265 def self.fosmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000158') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000763)
# File lib/biointerchange/so.rb, line 4901 def self.fosmid_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000763') end
A non-canonical start codon with 4 base pairs. (purl.obolibrary.org/obo/SO_1001269)
# File lib/biointerchange/so.rb, line 13559 def self.four_bp_start_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001269') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000244)
# File lib/biointerchange/so.rb, line 1785 def self.four_cutter_restriction_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000244') end
4_demethylwyosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001341)
# File lib/biointerchange/so.rb, line 8311 def self.four_demethylwyosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001341') end
4_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001350)
# File lib/biointerchange/so.rb, line 8365 def self.four_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001350') end
A fragment assembly is a genome assembly that orders overlapping fragments of the genome based on landmark sequences. The base pair distance between the landmarks is known allowing additivity of lengths. (purl.obolibrary.org/obo/SO_0001249)
# File lib/biointerchange/so.rb, line 7759 def self.fragment_assembly return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001249') end
An attribute to describe a feature that is incomplete. (purl.obolibrary.org/obo/SO_0000731)
# File lib/biointerchange/so.rb, line 4709 def self.fragmentary return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000731') end
A mutation that reverts the sequence of a previous frameshift mutation back to the initial frame. (purl.obolibrary.org/obo/SO_1000110)
# File lib/biointerchange/so.rb, line 13055 def self.frame_restoring_sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000110') end
A sequence variant that reverts the sequence of a previous frameshift mutation back to the initial frame. (purl.obolibrary.org/obo/SO_0001591)
# File lib/biointerchange/so.rb, line 9787 def self.frame_restoring_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001591') end
An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is not divisible by 3. (purl.obolibrary.org/obo/SO_0000865)
# File lib/biointerchange/so.rb, line 5471 def self.frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000865') end
A frameshift variant that causes the translational reading frame to be extended relative to the reference feature. (purl.obolibrary.org/obo/SO_0001909)
# File lib/biointerchange/so.rb, line 11659 def self.frameshift_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001909') end
A mutation causing a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three. (purl.obolibrary.org/obo/SO_1000065)
# File lib/biointerchange/so.rb, line 12803 def self.frameshift_sequence_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000065') end
A frameshift variant that causes the translational reading frame to be shortened relative to the reference feature. (purl.obolibrary.org/obo/SO_0001910)
# File lib/biointerchange/so.rb, line 11665 def self.frameshift_truncation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001910') end
A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three. (purl.obolibrary.org/obo/SO_0001589)
# File lib/biointerchange/so.rb, line 9775 def self.frameshift_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001589') end
The quality of a duplication where the new region exists independently of the original. (purl.obolibrary.org/obo/SO_0001516)
# File lib/biointerchange/so.rb, line 9355 def self.free return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001516') end
A chromosome structure variation whereby an arm exists as an individual chromosome element. (purl.obolibrary.org/obo/SO_0000065)
# File lib/biointerchange/so.rb, line 707 def self.free_chromosome_arm return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000065') end
A chromosome structure variation whereby the duplicated sequences are carried as a free centric element. (purl.obolibrary.org/obo/SO_1000144)
# File lib/biointerchange/so.rb, line 13199 def self.free_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000144') end
A ring chromosome which is a copy of another chromosome. (purl.obolibrary.org/obo/SO_1000145)
# File lib/biointerchange/so.rb, line 13205 def self.free_ring_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000145') end
A candidate gene whose function has something in common biologically with the trait under investigation. (purl.obolibrary.org/obo/SO_0001869)
# File lib/biointerchange/so.rb, line 11419 def self.functional_candidate_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001869') end
A sequence variant in which the function of a gene product is altered with respect to a reference. (purl.obolibrary.org/obo/SO_0001536)
# File lib/biointerchange/so.rb, line 9475 def self.functional_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001536') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000806)
# File lib/biointerchange/so.rb, line 5129 def self.fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000806') end
A gene that is a fusion. (purl.obolibrary.org/obo/SO_0000287)
# File lib/biointerchange/so.rb, line 2043 def self.fusion_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000287') end
A non-protein_coding gene that encodes a guide_RNA. (purl.obolibrary.org/obo/SO_0000979)
# File lib/biointerchange/so.rb, line 6149 def self.gRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000979') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001264)
# File lib/biointerchange/so.rb, line 7849 def self.gRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001264') end
X gained Y if X is a variant_of
X’ and Y part of X but not X’. (purl.obolibrary.org/obo/so_2_5_2.obo#gained)
# File lib/biointerchange/so.rb, line 101 def self.gained return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#gained') end
Galactosyl_queuosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001319)
# File lib/biointerchange/so.rb, line 8179 def self.galactosyl_queuosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001319') end
Gamma turns, defined for 3 residues i,( i+1),( i+2) if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees. (purl.obolibrary.org/obo/SO_0001138)
# File lib/biointerchange/so.rb, line 7099 def self.gamma_turn return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001138') end
Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=75.0 - psi(i+1)=-64.0. (purl.obolibrary.org/obo/SO_0001139)
# File lib/biointerchange/so.rb, line 7105 def self.gamma_turn_classic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001139') end
Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=-79.0 - psi(i+1)=69.0. (purl.obolibrary.org/obo/SO_0001140)
# File lib/biointerchange/so.rb, line 7111 def self.gamma_turn_inverse return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001140') end
A gap in the sequence of known length. The unknown bases are filled in with N’s. (purl.obolibrary.org/obo/SO_0000730)
# File lib/biointerchange/so.rb, line 4703 def self.gap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000730') end
A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions. (purl.obolibrary.org/obo/SO_0000704)
# File lib/biointerchange/so.rb, line 4547 def self.gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000704') end
An array includes two or more genes, or two or more gene subarrays, contiguously arranged where the individual genes, or subarrays, are either identical in sequence, or essentially so. (purl.obolibrary.org/obo/SO_0005851)
# File lib/biointerchange/so.rb, line 12305 def self.gene_array return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005851') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000081)
# File lib/biointerchange/so.rb, line 803 def self.gene_array_member return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000081') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000401)
# File lib/biointerchange/so.rb, line 2721 def self.gene_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000401') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000085)
# File lib/biointerchange/so.rb, line 827 def self.gene_by_genome_location return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000085') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000086)
# File lib/biointerchange/so.rb, line 833 def self.gene_by_organelle_of_genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000086') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000066)
# File lib/biointerchange/so.rb, line 713 def self.gene_by_polyadenylation_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000066') end
This classes of attributes was added by MA to allow the broad description of genes based on qualities of the transcript(s). A product of SO
meeting 2004. (purl.obolibrary.org/obo/SO_0000064)
# File lib/biointerchange/so.rb, line 701 def self.gene_by_transcript_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000064') end
A gene that can be substituted for a related gene at a different site in the genome. (purl.obolibrary.org/obo/SO_0005853)
# File lib/biointerchange/so.rb, line 12317 def self.gene_cassette return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005853') end
An array of non-functional genes whose members, when captured by recombination form functional genes. (purl.obolibrary.org/obo/SO_0005854)
# File lib/biointerchange/so.rb, line 12323 def self.gene_cassette_array return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005854') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0005848)
# File lib/biointerchange/so.rb, line 12287 def self.gene_cassette_member return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005848') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000009)
# File lib/biointerchange/so.rb, line 369 def self.gene_class return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000009') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000842)
# File lib/biointerchange/so.rb, line 5333 def self.gene_component_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000842') end
This term is mapped to MGED. Do not obsolete without consulting MGED ontology. (purl.obolibrary.org/obo/SO_0000997)
# File lib/biointerchange/so.rb, line 6257 def self.gene_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000997') end
A sequence variant whereby a two genes have become joined. (purl.obolibrary.org/obo/SO_0001565)
# File lib/biointerchange/so.rb, line 9649 def self.gene_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001565') end
A collection of related genes. (purl.obolibrary.org/obo/SO_0005855)
# File lib/biointerchange/so.rb, line 12329 def self.gene_group return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005855') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000752)
# File lib/biointerchange/so.rb, line 4835 def self.gene_group_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000752') end
A region of a gene. (purl.obolibrary.org/obo/SO_0000831)
# File lib/biointerchange/so.rb, line 5267 def self.gene_member_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000831') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000438)
# File lib/biointerchange/so.rb, line 2947 def self.gene_not_polyadenylated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000438') end
A part of a gene, that has no other route in the ontology back to region. This concept is necessary for logical inference as these parts must have the properties of region. It also allows us to associate all the parts of genes with a gene. (purl.obolibrary.org/obo/SO_0000050)
# File lib/biointerchange/so.rb, line 609 def self.gene_part return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000050') end
An epigenetically modified gene, rearranged at the DNA
level. (purl.obolibrary.org/obo/SO_0000138)
# File lib/biointerchange/so.rb, line 1145 def self.gene_rearranged_at_DNA_level return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000138') end
A gene component region which acts as a recombinational unit of a gene whose functional form is generated through somatic recombination. (purl.obolibrary.org/obo/SO_3000000)
# File lib/biointerchange/so.rb, line 13673 def self.gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_3000000') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000008)
# File lib/biointerchange/so.rb, line 363 def self.gene_sensu_your_favorite_organism return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000008') end
A gene that is silenced by DNA
methylation. (purl.obolibrary.org/obo/SO_0000129)
# File lib/biointerchange/so.rb, line 1091 def self.gene_silenced_by_DNA_methylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000129') end
A gene that is silenced by DNA
modification. (purl.obolibrary.org/obo/SO_0000128)
# File lib/biointerchange/so.rb, line 1085 def self.gene_silenced_by_DNA_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000128') end
A gene that is silenced by RNA
interference. (purl.obolibrary.org/obo/SO_0001224)
# File lib/biointerchange/so.rb, line 7615 def self.gene_silenced_by_RNA_interference return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001224') end
A gene that is silenced by histone deacetylation. (purl.obolibrary.org/obo/SO_0001227)
# File lib/biointerchange/so.rb, line 7633 def self.gene_silenced_by_histone_deacetylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001227') end
A gene that is silenced by histone methylation. (purl.obolibrary.org/obo/SO_0001226)
# File lib/biointerchange/so.rb, line 7627 def self.gene_silenced_by_histone_methylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001226') end
A gene that is silenced by histone modification. (purl.obolibrary.org/obo/SO_0001225)
# File lib/biointerchange/so.rb, line 7621 def self.gene_silenced_by_histone_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001225') end
A subarray is, by defintition, a member of a gene array (SO:0005851); the members of a subarray may differ substantially in sequence, but are closely related in function. (purl.obolibrary.org/obo/SO_0005852)
# File lib/biointerchange/so.rb, line 12311 def self.gene_subarray return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005852') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0005849)
# File lib/biointerchange/so.rb, line 12293 def self.gene_subarray_member return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005849') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000067)
# File lib/biointerchange/so.rb, line 719 def self.gene_to_gene_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000067') end
A gene trap construct is a type of engineered plasmid which is designed to integrate into a genome and produce a fusion transcript between exons of the gene into which it inserts and a reporter element in the construct. Gene traps contain a splice acceptor, do not contain promoter elements for the reporter, and are mutagenic. Gene traps may be bicistronic with the second cassette containing a promoter driving an a selectable marker. (purl.obolibrary.org/obo/SO_0001477)
# File lib/biointerchange/so.rb, line 9121 def self.gene_trap_construct return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001477') end
A sequence variant where the structure of the gene is changed. (purl.obolibrary.org/obo/SO_0001564)
# File lib/biointerchange/so.rb, line 9643 def self.gene_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001564') end
A gene that encodes a polycistronic mRNA. (purl.obolibrary.org/obo/SO_0000722)
# File lib/biointerchange/so.rb, line 4655 def self.gene_with_dicistronic_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000722') end
A gene that encodes a dicistronic primary transcript. (purl.obolibrary.org/obo/SO_0000721)
# File lib/biointerchange/so.rb, line 4649 def self.gene_with_dicistronic_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000721') end
A gene that encodes a dicistronic transcript. (purl.obolibrary.org/obo/SO_0000692)
# File lib/biointerchange/so.rb, line 4475 def self.gene_with_dicistronic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000692') end
A gene that encodes a transcript that is edited. (purl.obolibrary.org/obo/SO_0000548)
# File lib/biointerchange/so.rb, line 3607 def self.gene_with_edited_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000548') end
A gene with mRNA recoded by translational bypass. (purl.obolibrary.org/obo/SO_0000711)
# File lib/biointerchange/so.rb, line 4589 def self.gene_with_mRNA_recoded_by_translational_bypass return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000711') end
A gene that encodes an mRNA with a frameshift. (purl.obolibrary.org/obo/SO_0000455)
# File lib/biointerchange/so.rb, line 3049 def self.gene_with_mRNA_with_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000455') end
A gene with a start codon other than AUG. (purl.obolibrary.org/obo/SO_0001739)
# File lib/biointerchange/so.rb, line 10645 def self.gene_with_non_canonical_start_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001739') end
A gene that encodes a polyadenylated mRNA. (purl.obolibrary.org/obo/SO_0000451)
# File lib/biointerchange/so.rb, line 3025 def self.gene_with_polyadenylated_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000451') end
A gene that encodes a polycistronic transcript. (purl.obolibrary.org/obo/SO_0000690)
# File lib/biointerchange/so.rb, line 4463 def self.gene_with_polycistronic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000690') end
A gene that encodes an mRNA that is recoded. (purl.obolibrary.org/obo/SO_0000693)
# File lib/biointerchange/so.rb, line 4481 def self.gene_with_recoded_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000693') end
A gene with a translational start codon of CUG. (purl.obolibrary.org/obo/SO_0001740)
# File lib/biointerchange/so.rb, line 10651 def self.gene_with_start_codon_CUG return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001740') end
A gene that encodes a transcript with stop codon readthrough. (purl.obolibrary.org/obo/SO_0000697)
# File lib/biointerchange/so.rb, line 4505 def self.gene_with_stop_codon_read_through return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000697') end
A gene encoding an mRNA that has the stop codon redefined as pyrrolysine. (purl.obolibrary.org/obo/SO_0000698)
# File lib/biointerchange/so.rb, line 4511 def self.gene_with_stop_codon_redefined_as_pyrrolysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000698') end
A gene encoding an mRNA that has the stop codon redefined as selenocysteine. (purl.obolibrary.org/obo/SO_0000710)
# File lib/biointerchange/so.rb, line 4583 def self.gene_with_stop_codon_redefined_as_selenocysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000710') end
A gene with a transcript that is trans-spliced. (purl.obolibrary.org/obo/SO_0000459)
# File lib/biointerchange/so.rb, line 3073 def self.gene_with_trans_spliced_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000459') end
A gene encoding a transcript that has a translational frameshift. (purl.obolibrary.org/obo/SO_0000712)
# File lib/biointerchange/so.rb, line 4595 def self.gene_with_transcript_with_translational_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000712') end
A measurable sequence feature that varies within a population. (purl.obolibrary.org/obo/SO_0001645)
# File lib/biointerchange/so.rb, line 10105 def self.genetic_marker return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001645') end
A genome is the sum of genetic material within a cell or virion. (purl.obolibrary.org/obo/SO_0001026)
# File lib/biointerchange/so.rb, line 6431 def self.genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001026') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#genome_of)
# File lib/biointerchange/so.rb, line 107 def self.genome_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#genome_of') end
This term is mapped to MGED. Do not obsolete without consulting MGED ontology. (purl.obolibrary.org/obo/SO_0000991)
# File lib/biointerchange/so.rb, line 6221 def self.genomic_DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000991') end
A sequencer read of a genomic DNA
substrate. (purl.obolibrary.org/obo/SO_0001828)
# File lib/biointerchange/so.rb, line 11173 def self.genomic_DNA_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001828') end
A clone of a DNA
region of a genome. (purl.obolibrary.org/obo/SO_0000040)
# File lib/biointerchange/so.rb, line 549 def self.genomic_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000040') end
A genomic island is an integrated mobile genetic element, characterized by size (over 10 Kb). It that has features that suggest a foreign origin. These can include nucleotide distribution (oligonucleotides signature, CG content etc.) that differs from the bulk of the chromosome and/or genes suggesting DNA
mobility. (purl.obolibrary.org/obo/SO_0000772)
# File lib/biointerchange/so.rb, line 4949 def self.genomic_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000772') end
A cDNA clone invalidated by genomic contamination. (purl.obolibrary.org/obo/SO_0000811)
# File lib/biointerchange/so.rb, line 5159 def self.genomically_contaminated_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000811') end
Imprinted genes are epigenetically modified genes that are expressed monoallelically according to their parent of origin. (purl.obolibrary.org/obo/SO_0000134)
# File lib/biointerchange/so.rb, line 1121 def self.genomically_imprinted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000134') end
A genotype is a variant genome, complete or incomplete. (purl.obolibrary.org/obo/SO_0001027)
# File lib/biointerchange/so.rb, line 6437 def self.genotype return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001027') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001778)
# File lib/biointerchange/so.rb, line 10879 def self.germline_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001778') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001454)
# File lib/biointerchange/so.rb, line 8983 def self.glutamic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001454') end
A primary transcript encoding glutaminyl tRNA (SO:0000260). (purl.obolibrary.org/obo/SO_0000216)
# File lib/biointerchange/so.rb, line 1617 def self.glutamic_acid_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000216') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001448)
# File lib/biointerchange/so.rb, line 8947 def self.glutamine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001448') end
A primary transcript encoding glutamyl tRNA (SO:0000260). (purl.obolibrary.org/obo/SO_0000217)
# File lib/biointerchange/so.rb, line 1623 def self.glutamine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000217') end
A tRNA sequence that has a glutamine anticodon, and a 3’ glutamine binding region. (purl.obolibrary.org/obo/SO_0000259)
# File lib/biointerchange/so.rb, line 1875 def self.glutaminyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000259') end
A tRNA sequence that has a glutamic acid anticodon, and a 3’ glutamic acid binding region. (purl.obolibrary.org/obo/SO_0000260)
# File lib/biointerchange/so.rb, line 1881 def self.glutamyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000260') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001443)
# File lib/biointerchange/so.rb, line 8917 def self.glycine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001443') end
A primary transcript encoding glycyl tRNA (SO:0000263). (purl.obolibrary.org/obo/SO_0000218)
# File lib/biointerchange/so.rb, line 1629 def self.glycine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000218') end
A tRNA sequence that has a glycine anticodon, and a 3’ glycine binding region. (purl.obolibrary.org/obo/SO_0000261)
# File lib/biointerchange/so.rb, line 1887 def self.glycyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000261') end
A set of subregions selected from sequence contigs which when concatenated form a nonredundant linear sequence. (purl.obolibrary.org/obo/SO_0000688)
# File lib/biointerchange/so.rb, line 4451 def self.golden_path return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000688') end
One of the pieces of sequence that make up a golden path. (purl.obolibrary.org/obo/SO_0000468)
# File lib/biointerchange/so.rb, line 3127 def self.golden_path_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000468') end
A region of intronic nucleotide sequence targeted by a nuclease enzyme. (purl.obolibrary.org/obo/SO_0000354)
# File lib/biointerchange/so.rb, line 2445 def self.group_1_intron_homing_endonuclease_target_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000354') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000381)
# File lib/biointerchange/so.rb, line 2601 def self.group_IIA_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000381') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000382)
# File lib/biointerchange/so.rb, line 2607 def self.group_IIB_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000382') end
Group III introns are introns found in the mRNA of the plastids of euglenoid protists. They are spliced by a two step transesterification with bulged adenosine as initiating nucleophile. (purl.obolibrary.org/obo/SO_0001213)
# File lib/biointerchange/so.rb, line 7549 def self.group_III_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001213') end
Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI). A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2’ hydroxyl of a bulged adenosine in domain VI attacks the 5’ splice site, followed by nucleophilic attack on the 3’ splice site by the 3’ OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3’ splice site, some tertiary interactions, and intronic ORF
phylogeny. (purl.obolibrary.org/obo/SO_0000603)
# File lib/biointerchange/so.rb, line 3941 def self.group_II_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000603') end
Group I catalytic introns are large self-splicing ribozymes. They catalyze their own excision from mRNA, tRNA and rRNA precursors in a wide range of organisms. The core secondary structure consists of 9 paired regions (P1-P9). These fold to essentially two domains, the P4-P6 domain (formed from the stacking of P5, P4, P6 and P6a helices) and the P3-P9 domain (formed from the P8, P3, P7 and P9 helices). Group I catalytic introns often have long ORFs inserted in loop regions. (purl.obolibrary.org/obo/SO_0000587)
# File lib/biointerchange/so.rb, line 3845 def self.group_I_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000587') end
A short 3’-uridylated RNA
that can form a duplex (except for its post-transcriptionally added oligo_U tail (SO:0000609)) with a stretch of mature edited mRNA. (purl.obolibrary.org/obo/SO_0000602)
# File lib/biointerchange/so.rb, line 3935 def self.guide_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000602') end
A region of guide RNA
. (purl.obolibrary.org/obo/SO_0000930)
# File lib/biointerchange/so.rb, line 5861 def self.guide_RNA_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000930') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#guided_by)
# File lib/biointerchange/so.rb, line 113 def self.guided_by return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#guided_by') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#guides)
# File lib/biointerchange/so.rb, line 119 def self.guides return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#guides') end
A small catalytic RNA
motif that catalyzes self-cleavage reaction. Its name comes from its secondary structure which resembles a carpenter’s hammer. The hammerhead ribozyme is involved in the replication of some viroid and some satellite RNAs. (purl.obolibrary.org/obo/SO_0000380)
# File lib/biointerchange/so.rb, line 2595 def self.hammerhead_ribozyme return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000380') end
A haplotype is one of a set of coexisting sequence variants of a haplotype block. (purl.obolibrary.org/obo/SO_0001024)
# File lib/biointerchange/so.rb, line 6419 def self.haplotype return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001024') end
A region of the genome which is co-inherited as the result of the lack of historic recombination within it. (purl.obolibrary.org/obo/SO_0000355)
# File lib/biointerchange/so.rb, line 2451 def self.haplotype_block return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000355') end
X has_integral_part
Y if and only if: X has_part
Y and Y part_of
X. (purl.obolibrary.org/obo/so_2_5_2.obo#has_integral_part)
# File lib/biointerchange/so.rb, line 125 def self.has_integral_part return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_integral_part') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#has_origin)
# File lib/biointerchange/so.rb, line 131 def self.has_origin return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_origin') end
Recursively tries to determine the parent for a given URI.
uri
-
URI that is tested for whether it has the given parent URI.
parent
-
Parent URI.
# File lib/biointerchange/so.rb, line 20563 def self.has_parent?(uri, parent) if @@parent_properties.has_key?(uri) then if @@parent_properties[uri] == parent then return true end return has_parent?(@@parent_properties[uri], parent) end return false end
Inverse of part_of. (purl.obolibrary.org/obo/so_2_5_2.obo#has_part)
# File lib/biointerchange/so.rb, line 137 def self.has_part return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_part') end
The relationship between a feature and an attribute. (purl.obolibrary.org/obo/so_2_5_2.obo#has_quality)
# File lib/biointerchange/so.rb, line 143 def self.has_quality return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_quality') end
A rolling circle transposon. Autonomous helitrons encode a 5’-to-3’ DNA
helicase and nuclease/ligase similar to those encoded by known rolling-circle replicons. (purl.obolibrary.org/obo/SO_0000544)
# File lib/biointerchange/so.rb, line 3583 def self.helitron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000544') end
A motif comprising two helices separated by a turn. (purl.obolibrary.org/obo/SO_0001081)
# File lib/biointerchange/so.rb, line 6757 def self.helix_turn_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001081') end
Seven nucleotide recombination site (e.g. CACAGTG), part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000561)
# File lib/biointerchange/so.rb, line 3689 def self.heptamer_of_recombination_feature_of_vertebrate_immune_system_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000561') end
A biological_region
characterized as a single heritable trait in a phenotype screen. The heritable phenotype may be mapped to a chromosome but generally has not been characterized to a specific gene locus. (purl.obolibrary.org/obo/SO_0001500)
# File lib/biointerchange/so.rb, line 9259 def self.heritable_phenotypic_marker return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001500') end
A compound chromosome whereby two arms from different chromosomes are connected through the centromere of one of them. (purl.obolibrary.org/obo/SO_1000140)
# File lib/biointerchange/so.rb, line 13175 def self.hetero_compound_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000140') end
An experimental feature with high sequence identity to another sequence. (purl.obolibrary.org/obo/SO_0001502)
# File lib/biointerchange/so.rb, line 9271 def self.high_identity_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001502') end
The status of a whole genome sequence, where overall coverage represents at least 90 percent of the genome. (purl.obolibrary.org/obo/SO_0001487)
# File lib/biointerchange/so.rb, line 9181 def self.high_quality_draft return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001487') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001452)
# File lib/biointerchange/so.rb, line 8971 def self.histidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001452') end
A primary transcript encoding histidyl tRNA (SO:0000262). (purl.obolibrary.org/obo/SO_0000219)
# File lib/biointerchange/so.rb, line 1635 def self.histidine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000219') end
A tRNA sequence that has a histidine anticodon, and a 3’ histidine binding region. (purl.obolibrary.org/obo/SO_0000262)
# File lib/biointerchange/so.rb, line 1893 def self.histidyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000262') end
A histone 3 modification where the modification is the acylation of the residue. (purl.obolibrary.org/obo/SO_0001973)
# File lib/biointerchange/so.rb, line 12047 def self.histone_3_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001973') end
A histone 4 modification where the modification is the acylation of the residue. (purl.obolibrary.org/obo/SO_0001972)
# File lib/biointerchange/so.rb, line 12041 def self.histone_4_acylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001972') end
A histone modification where the modification is the acylation of the residue. (purl.obolibrary.org/obo/SO_0001702)
# File lib/biointerchange/so.rb, line 10423 def self.histone_acetylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001702') end
A histone modification, whereby the histone protein is acylated at multiple sites in a region. (purl.obolibrary.org/obo/SO_0001737)
# File lib/biointerchange/so.rb, line 10633 def self.histone_acylation_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001737') end
A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a histone. (purl.obolibrary.org/obo/SO_0001383)
# File lib/biointerchange/so.rb, line 8563 def self.histone_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001383') end
A histone modification site where the modification is the methylation of the residue. (purl.obolibrary.org/obo/SO_0001701)
# File lib/biointerchange/so.rb, line 10417 def self.histone_methylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001701') end
Histone modification is a post translationally modified region whereby residues of the histone protein are modified by methylation, acetylation, phosphorylation, ubiquitination, sumoylation, citrullination, or ADP-ribosylation. (purl.obolibrary.org/obo/SO_0001700)
# File lib/biointerchange/so.rb, line 10411 def self.histone_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001700') end
A histone modification site where ubiquitin may be added. (purl.obolibrary.org/obo/SO_0001716)
# File lib/biointerchange/so.rb, line 10507 def self.histone_ubiqitination_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001716') end
The binding site (recognition site) of a homing endonuclease. The binding site is typically large. (purl.obolibrary.org/obo/SO_0001257)
# File lib/biointerchange/so.rb, line 7807 def self.homing_endonuclease_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001257') end
A compound chromosome whereby two copies of the same chromosomal arm attached to a common centromere. The chromosome is diploid for the arm involved. (purl.obolibrary.org/obo/SO_1000138)
# File lib/biointerchange/so.rb, line 13169 def self.homo_compound_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000138') end
A core promoter element that has the consensus sequence CAGTCACA (or its inverted form TGTGACTG), and plays the role of a TATA box in promoters that do not contain a canonical TATA sequence. (purl.obolibrary.org/obo/SO_0001848)
# File lib/biointerchange/so.rb, line 11293 def self.homol_D_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001848') end
A core promoter element that has the consensus sequence ACCCTACCCT (or its inverted form AGGGTAGGGT), and is found near the homol D box in some promoters that use a homol D box instead of a canonical TATA sequence. (purl.obolibrary.org/obo/SO_0001849)
# File lib/biointerchange/so.rb, line 11299 def self.homol_E_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001849') end
Similarity due to common ancestry. (purl.obolibrary.org/obo/SO_0000857)
# File lib/biointerchange/so.rb, line 5423 def self.homologous return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000857') end
A region that is homologous to another region. (purl.obolibrary.org/obo/SO_0000853)
# File lib/biointerchange/so.rb, line 5399 def self.homologous_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000853') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#homologous_to)
# File lib/biointerchange/so.rb, line 149 def self.homologous_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#homologous_to') end
Hydrophobic regions are regions with a low affinity for water. (purl.obolibrary.org/obo/SO_0100013)
# File lib/biointerchange/so.rb, line 12425 def self.hydrophobic_region_of_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100013') end
Hydroxywybutosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001334)
# File lib/biointerchange/so.rb, line 8269 def self.hydroxywybutosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001334') end
A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as extra chromosomes are present. (purl.obolibrary.org/obo/SO_0000055)
# File lib/biointerchange/so.rb, line 643 def self.hyperploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000055') end
A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as some chromosomes are missing. (purl.obolibrary.org/obo/SO_0000056)
# File lib/biointerchange/so.rb, line 649 def self.hypoploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000056') end
Genomic sequence removed from the genome, as a normal event, by a process of recombination. (purl.obolibrary.org/obo/SO_0000723)
# File lib/biointerchange/so.rb, line 4661 def self.iDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000723') end
A cytosine rich domain whereby strands associate both inter- and intramolecularly at moderately acidic pH. (purl.obolibrary.org/obo/SO_0001010)
# File lib/biointerchange/so.rb, line 6335 def self.i_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001010') end
An immature_peptide_region
is the extent of the peptide after it has been translated and before any processing occurs. (purl.obolibrary.org/obo/SO_0001063)
# File lib/biointerchange/so.rb, line 6661 def self.immature_peptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001063') end
A region of immunoglobulin sequence, either constant or variable. (purl.obolibrary.org/obo/SO_0001832)
# File lib/biointerchange/so.rb, line 11197 def self.immunoglobulin_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001832') end
The status of a whole genome sequence, where additional work has been performed, using either manual or automated methods, such as gap resolution. (purl.obolibrary.org/obo/SO_0001488)
# File lib/biointerchange/so.rb, line 9187 def self.improved_high_quality_draft return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001488') end
A sequence variant that causes the inactivation of a catalytic site with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001618)
# File lib/biointerchange/so.rb, line 9949 def self.inactive_catalytic_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001618') end
A sequence variant that causes the inactivation of a ligand binding site with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001560)
# File lib/biointerchange/so.rb, line 9619 def self.inactive_ligand_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001560') end
A sequence variant where at least one base of the final codon of an incompletely annotated transcript is changed. (purl.obolibrary.org/obo/SO_0001626)
# File lib/biointerchange/so.rb, line 9991 def self.incomplete_terminal_codon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001626') end
A transcript processing variant whereby polyadenylation of the encoded transcript is increased with respect to the reference. (purl.obolibrary.org/obo/SO_0001802)
# File lib/biointerchange/so.rb, line 11017 def self.increased_polyadenylation_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001802') end
A sequence variant that increases the level of mature, spliced and processed RNA
with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001542)
# File lib/biointerchange/so.rb, line 9511 def self.increased_transcript_level_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001542') end
A sequence variant that increases transcript stability with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001548)
# File lib/biointerchange/so.rb, line 9547 def self.increased_transcript_stability_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001548') end
A sequence variant that increases the rate of transcription with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001551)
# File lib/biointerchange/so.rb, line 9565 def self.increased_transcription_rate_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001551') end
A sequence variant which increases the translational product level with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001556)
# File lib/biointerchange/so.rb, line 9595 def self.increased_translational_product_level return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001556') end
A sequence alteration which included an insertion and a deletion, affecting 2 or more bases. (purl.obolibrary.org/obo/SO_1000032)
# File lib/biointerchange/so.rb, line 12635 def self.indel return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000032') end
Attribute to describe a feature that is independently known - not predicted. (purl.obolibrary.org/obo/SO_0000906)
# File lib/biointerchange/so.rb, line 5717 def self.independently_known return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000906') end
An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is divisible by 3. (purl.obolibrary.org/obo/SO_0001817)
# File lib/biointerchange/so.rb, line 11107 def self.inframe return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001817') end
An inframe non synonymous variant that deletes bases from the coding sequence. (purl.obolibrary.org/obo/SO_0001822)
# File lib/biointerchange/so.rb, line 11137 def self.inframe_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001822') end
A coding sequence variant where the change does not alter the frame of the transcript. (purl.obolibrary.org/obo/SO_0001820)
# File lib/biointerchange/so.rb, line 11125 def self.inframe_indel return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001820') end
An inframe non synonymous variant that inserts bases into in the coding sequence. (purl.obolibrary.org/obo/SO_0001821)
# File lib/biointerchange/so.rb, line 11131 def self.inframe_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001821') end
A sequence variant which does not cause a disruption of the translational reading frame. (purl.obolibrary.org/obo/SO_0001650)
# File lib/biointerchange/so.rb, line 10123 def self.inframe_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001650') end
A codon variant that changes at least one base of the first codon of a transcript. (purl.obolibrary.org/obo/SO_0001582)
# File lib/biointerchange/so.rb, line 9745 def self.initiator_codon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001582') end
A modified RNA
base in which hypoxanthine is bound to the ribose ring. (purl.obolibrary.org/obo/SO_0001230)
# File lib/biointerchange/so.rb, line 7651 def self.inosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001230') end
To insert a subsection of sequence. (purl.obolibrary.org/obo/SO_0000046)
# File lib/biointerchange/so.rb, line 585 def self.insert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000046') end
An edit to insert a AA dinucleotide. (purl.obolibrary.org/obo/SO_0000928)
# File lib/biointerchange/so.rb, line 5849 def self.insert_AA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000928') end
An edit to insert a AU dinucleotide. (purl.obolibrary.org/obo/SO_0000927)
# File lib/biointerchange/so.rb, line 5843 def self.insert_AU return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000927') end
An edit to insert a cytidine. (purl.obolibrary.org/obo/SO_0000920)
# File lib/biointerchange/so.rb, line 5801 def self.insert_C return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000920') end
An edit to insert a CU dinucleotide. (purl.obolibrary.org/obo/SO_0000926)
# File lib/biointerchange/so.rb, line 5837 def self.insert_CU return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000926') end
An edit to insert a G. (purl.obolibrary.org/obo/SO_0000923)
# File lib/biointerchange/so.rb, line 5819 def self.insert_G return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000923') end
An edit to insert a GC dinucleotide. (purl.obolibrary.org/obo/SO_0000924)
# File lib/biointerchange/so.rb, line 5825 def self.insert_GC return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000924') end
An edit to insert a GU dinucleotide. (purl.obolibrary.org/obo/SO_0000925)
# File lib/biointerchange/so.rb, line 5831 def self.insert_GU return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000925') end
An edit to insert a U. (purl.obolibrary.org/obo/SO_0000917)
# File lib/biointerchange/so.rb, line 5783 def self.insert_U return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000917') end
An edit to insert a dinucleotide. (purl.obolibrary.org/obo/SO_0000921)
# File lib/biointerchange/so.rb, line 5807 def self.insert_dinucleotide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000921') end
The sequence of one or more nucleotides added between two adjacent nucleotides in the sequence. (purl.obolibrary.org/obo/SO_0000667)
# File lib/biointerchange/so.rb, line 4325 def self.insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000667') end
A quality of a chromosomal insertion,. (purl.obolibrary.org/obo/SO_0001512)
# File lib/biointerchange/so.rb, line 9331 def self.insertion_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001512') end
The point within a chromosome where a insertion begins or ends. (purl.obolibrary.org/obo/SO_0001414)
# File lib/biointerchange/so.rb, line 8749 def self.insertion_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001414') end
A terminal_inverted_repeat_element
that is bacterial and only encodes the functions required for its transposition between these inverted repeats. (purl.obolibrary.org/obo/SO_0000973)
# File lib/biointerchange/so.rb, line 6119 def self.insertion_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000973') end
The junction where an insertion occurred. (purl.obolibrary.org/obo/SO_0000366)
# File lib/biointerchange/so.rb, line 2511 def self.insertion_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000366') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001522)
# File lib/biointerchange/so.rb, line 9391 def self.insertional return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001522') end
A chromosome duplication involving the insertion of a duplicated region (as opposed to a free duplication). (purl.obolibrary.org/obo/SO_1000154)
# File lib/biointerchange/so.rb, line 13259 def self.insertional_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000154') end
An attribute to describe a gene when it is located within the intron of another gene. (purl.obolibrary.org/obo/SO_0000069)
# File lib/biointerchange/so.rb, line 731 def self.inside_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000069') end
An attribute to describe a gene when it is located within the intron of another gene and on the opposite strand. (purl.obolibrary.org/obo/SO_0000070)
# File lib/biointerchange/so.rb, line 737 def self.inside_intron_antiparallel return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000070') end
An attribute to describe a gene when it is located within the intron of another gene and on the same strand. (purl.obolibrary.org/obo/SO_0000071)
# File lib/biointerchange/so.rb, line 743 def self.inside_intron_parallel return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000071') end
A transcriptional cis regulatory region that when located between a CM and a gene’s promoter prevents the CRM
from modulating that genes expression. (purl.obolibrary.org/obo/SO_0000627)
# File lib/biointerchange/so.rb, line 4085 def self.insulator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000627') end
A binding site that, in an insulator region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. (purl.obolibrary.org/obo/SO_0001460)
# File lib/biointerchange/so.rb, line 9019 def self.insulator_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001460') end
X integral_part_of
Y if and only if: X part_of
Y and Y has_part
X. (purl.obolibrary.org/obo/so_2_5_2.obo#integral_part_of)
# File lib/biointerchange/so.rb, line 155 def self.integral_part_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#integral_part_of') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000369)
# File lib/biointerchange/so.rb, line 2529 def self.integrase_coding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000369') end
An MGE that is integrated into the host chromosome. (purl.obolibrary.org/obo/SO_0001039)
# File lib/biointerchange/so.rb, line 6509 def self.integrated_mobile_genetic_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001039') end
A plasmid sequence that is integrated within the host chromosome. (purl.obolibrary.org/obo/SO_0001040)
# File lib/biointerchange/so.rb, line 6515 def self.integrated_plasmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001040') end
A region specifically recognised by a recombinase, which inserts or removes another region marked by a distinct cognate integration/excision site. (purl.obolibrary.org/obo/SO_0000946)
# File lib/biointerchange/so.rb, line 5957 def self.integration_excision_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000946') end
A region encoding an integrase which acts at a site adjacent to it (attI_site
) to insert DNA
which must include but is not limited to an attC_site. (purl.obolibrary.org/obo/SO_0000365)
# File lib/biointerchange/so.rb, line 2505 def self.integron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000365') end
A region of a peptide that is able to excise itself and rejoin the remaining portions with a peptide bond. (purl.obolibrary.org/obo/SO_0000728)
# File lib/biointerchange/so.rb, line 4691 def self.intein return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000728') end
An attribute of protein-coding genes where the initial protein product contains an intein. (purl.obolibrary.org/obo/SO_0000729)
# File lib/biointerchange/so.rb, line 4697 def self.intein_containing return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000729') end
A light region between two darkly staining bands in a polytene chromosome. (purl.obolibrary.org/obo/SO_0000450)
# File lib/biointerchange/so.rb, line 3019 def self.interband return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000450') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001511)
# File lib/biointerchange/so.rb, line 9325 def self.interchromosomal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001511') end
A rearrangement breakpoint between two different chromosomes. (purl.obolibrary.org/obo/SO_0001873)
# File lib/biointerchange/so.rb, line 11443 def self.interchromosomal_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001873') end
A chromosome duplication involving an insertion from another chromosome. (purl.obolibrary.org/obo/SO_0000457)
# File lib/biointerchange/so.rb, line 3061 def self.interchromosomal_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000457') end
A chromosomal structure variation whereby more than one chromosome is involved. (purl.obolibrary.org/obo/SO_1000031)
# File lib/biointerchange/so.rb, line 12629 def self.interchromosomal_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000031') end
A chromosome structure variation whereby a transposition occurred between chromosomes. (purl.obolibrary.org/obo/SO_1000155)
# File lib/biointerchange/so.rb, line 13265 def self.interchromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000155') end
A region containing or overlapping no genes that is bounded on either side by a gene, or bounded by a gene and the end of the chromosome. (purl.obolibrary.org/obo/SO_0000605)
# File lib/biointerchange/so.rb, line 3953 def self.intergenic_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000605') end
A sequence variant located in the intergenic region, between genes. (purl.obolibrary.org/obo/SO_0001628)
# File lib/biointerchange/so.rb, line 10003 def self.intergenic_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001628') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000004)
# File lib/biointerchange/so.rb, line 339 def self.interior_coding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000004') end
An exon that is bounded by 5’ and 3’ splice sites. (purl.obolibrary.org/obo/SO_0000201)
# File lib/biointerchange/so.rb, line 1527 def self.interior_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000201') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000191)
# File lib/biointerchange/so.rb, line 1467 def self.interior_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000191') end
An attribute to describe a feature between stages of processing. (purl.obolibrary.org/obo/SO_0000933)
# File lib/biointerchange/so.rb, line 5879 def self.intermediate return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000933') end
A core promoter region of RNA
polymerase III type 1 promoters. (purl.obolibrary.org/obo/SO_0001677)
# File lib/biointerchange/so.rb, line 10273 def self.intermediate_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001677') end
A Shine-Dalgarno sequence that stimulates recoding through interactions with the anti-Shine-Dalgarno in the RNA
of small ribosomal subunits of translating ribosomes. The signal is only operative in Bacteria. (purl.obolibrary.org/obo/SO_1001260)
# File lib/biointerchange/so.rb, line 13505 def self.internal_Shine_Dalgarno_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001260') end
A UTR
bordered by the terminal and initial codons of two CDSs in a polycistronic transcript. Every UTR
is either 5’, 3’ or internal. (purl.obolibrary.org/obo/SO_0000241)
# File lib/biointerchange/so.rb, line 1767 def self.internal_UTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000241') end
A sequence eliminated from the genome of ciliates during nuclear differentiation. (purl.obolibrary.org/obo/SO_0000671)
# File lib/biointerchange/so.rb, line 4349 def self.internal_eliminated_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000671') end
A sequence variant that causes the extension of a genomic feature from within the feature rather than from the terminus of the feature, with regard to the reference sequence. (purl.obolibrary.org/obo/SO_0001908)
# File lib/biointerchange/so.rb, line 11653 def self.internal_feature_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001908') end
A purine-rich sequence in the group I introns which determines the locations of the splice sites in group I intron splicing and has catalytic activity. (purl.obolibrary.org/obo/SO_0001016)
# File lib/biointerchange/so.rb, line 6371 def self.internal_guide_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001016') end
Sequence element that recruits a ribosomal subunit to internal mRNA for translation initiation. (purl.obolibrary.org/obo/SO_0000243)
# File lib/biointerchange/so.rb, line 1779 def self.internal_ribosome_entry_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000243') end
Non-coding regions of DNA
sequence that separate genes coding for the 28S, 5.8S, and 18S ribosomal RNAs. (purl.obolibrary.org/obo/SO_0000639)
# File lib/biointerchange/so.rb, line 4157 def self.internal_transcribed_spacer_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000639') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001510)
# File lib/biointerchange/so.rb, line 9319 def self.intrachromosomal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001510') end
A rearrangement breakpoint within the same chromosome. (purl.obolibrary.org/obo/SO_0001874)
# File lib/biointerchange/so.rb, line 11449 def self.intrachromosomal_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001874') end
A duplication that occurred within a chromosome. (purl.obolibrary.org/obo/SO_1000038)
# File lib/biointerchange/so.rb, line 12659 def self.intrachromosomal_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000038') end
A chromosomal structure variation within a single chromosome. (purl.obolibrary.org/obo/SO_1000028)
# File lib/biointerchange/so.rb, line 12611 def self.intrachromosomal_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000028') end
A chromosome structure variation whereby a transposition occurred within a chromosome. (purl.obolibrary.org/obo/SO_1000041)
# File lib/biointerchange/so.rb, line 12677 def self.intrachromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000041') end
Polypeptide region present in the lipid bilayer. (purl.obolibrary.org/obo/SO_0001075)
# File lib/biointerchange/so.rb, line 6721 def self.intramembrane_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001075') end
A region of polypeptide chain with high conformational flexibility. (purl.obolibrary.org/obo/SO_0100003)
# File lib/biointerchange/so.rb, line 12365 def self.intrinsically_unstructured_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100003') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000664)
# File lib/biointerchange/so.rb, line 4307 def self.introgressed_chromosome_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000664') end
A region of a primary transcript that is transcribed, but removed from within the transcript by splicing together the sequences (exons) on either side of it. (purl.obolibrary.org/obo/SO_0000188)
# File lib/biointerchange/so.rb, line 1449 def self.intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000188') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000661)
# File lib/biointerchange/so.rb, line 4289 def self.intron_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000661') end
Fifth intronic position after the intron exon boundary, close to the 5’ edge of the intron. (purl.obolibrary.org/obo/SO_0001994)
# File lib/biointerchange/so.rb, line 12167 def self.intron_base_5 return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001994') end
Requested by Colin Batchelor, Feb 2007. (purl.obolibrary.org/obo/SO_0001014)
# File lib/biointerchange/so.rb, line 6359 def self.intron_domain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001014') end
A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor. (purl.obolibrary.org/obo/SO_0001573)
# File lib/biointerchange/so.rb, line 9697 def self.intron_gain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001573') end
A transcript variant occurring within an intron. (purl.obolibrary.org/obo/SO_0001627)
# File lib/biointerchange/so.rb, line 9997 def self.intron_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001627') end
A lnc_RNA
totally contained within an intron. (purl.obolibrary.org/obo/SO_0001903)
# File lib/biointerchange/so.rb, line 11623 def self.intronic_lncRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001903') end
A regulatory region that is part of an intron. (purl.obolibrary.org/obo/SO_0001492)
# File lib/biointerchange/so.rb, line 9211 def self.intronic_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001492') end
Sequences within the intron that modulate splice site selection for some introns. (purl.obolibrary.org/obo/SO_0000320)
# File lib/biointerchange/so.rb, line 2241 def self.intronic_splice_enhancer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000320') end
An attribute describing a feature that is invalidated. (purl.obolibrary.org/obo/SO_0000790)
# File lib/biointerchange/so.rb, line 5057 def self.invalidated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000790') end
A cDNA clone constructed from more than one mRNA. Usually an experimental artifact. (purl.obolibrary.org/obo/SO_0000362)
# File lib/biointerchange/so.rb, line 2487 def self.invalidated_by_chimeric_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000362') end
An attribute to describe a feature that is invalidated due to genomic contamination. (purl.obolibrary.org/obo/SO_0000414)
# File lib/biointerchange/so.rb, line 2799 def self.invalidated_by_genomic_contamination return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000414') end
An attribute to describe a feature that is invalidated due to polyA priming. (purl.obolibrary.org/obo/SO_0000415)
# File lib/biointerchange/so.rb, line 2805 def self.invalidated_by_genomic_polyA_primed_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000415') end
An attribute to describe a feature that is invalidated due to partial processing. (purl.obolibrary.org/obo/SO_0000416)
# File lib/biointerchange/so.rb, line 2811 def self.invalidated_by_partial_processing return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000416') end
A cDNA clone that is invalid. (purl.obolibrary.org/obo/SO_0000809)
# File lib/biointerchange/so.rb, line 5147 def self.invalidated_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000809') end
A continuous nucleotide sequence is inverted in the same position. (purl.obolibrary.org/obo/SO_1000036)
# File lib/biointerchange/so.rb, line 12647 def self.inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000036') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001517)
# File lib/biointerchange/so.rb, line 9361 def self.inversion_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001517') end
The point within a chromosome where an inversion begins or ends. (purl.obolibrary.org/obo/SO_0001022)
# File lib/biointerchange/so.rb, line 6407 def self.inversion_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001022') end
A chromosomal translocation whereby the first two breaks are in the same chromosome, and the region between them is rejoined in inverted order to the other side of the first break, such that both sides of break one are present on the same chromosome. The remaining free ends are joined as a translocation with those resulting from the third break. (purl.obolibrary.org/obo/SO_1000148)
# File lib/biointerchange/so.rb, line 13223 def self.inversion_cum_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000148') end
A chromosome may be generated by recombination between two inversions; presumed to have a deficiency or duplication at each end of the inversion. (purl.obolibrary.org/obo/SO_0000567)
# File lib/biointerchange/so.rb, line 3725 def self.inversion_derived_aneuploid_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000567') end
A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at each end of the inversion. (purl.obolibrary.org/obo/SO_0000461)
# File lib/biointerchange/so.rb, line 3085 def self.inversion_derived_bipartite_deficiency return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000461') end
A chromosome generated by recombination between two inversions; there is a duplication at each end of the inversion. (purl.obolibrary.org/obo/SO_0000547)
# File lib/biointerchange/so.rb, line 3601 def self.inversion_derived_bipartite_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000547') end
A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at one end and presumed to have a deficiency or duplication at the other end of the inversion. (purl.obolibrary.org/obo/SO_0000512)
# File lib/biointerchange/so.rb, line 3391 def self.inversion_derived_deficiency_plus_aneuploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000512') end
A chromosome deletion whereby a chromosome is generated by recombination between two inversions; there is a deficiency at one end of the inversion and a duplication at the other end of the inversion. (purl.obolibrary.org/obo/SO_0000465)
# File lib/biointerchange/so.rb, line 3109 def self.inversion_derived_deficiency_plus_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000465') end
A chromosome generated by recombination between two inversions; has a duplication at one end and presumed to have a deficiency or duplication at the other end of the inversion. (purl.obolibrary.org/obo/SO_0000549)
# File lib/biointerchange/so.rb, line 3613 def self.inversion_derived_duplication_plus_aneuploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000549') end
A region specifically recognised by a recombinase, which inverts the region flanked by a pair of sites. (purl.obolibrary.org/obo/SO_0000948)
# File lib/biointerchange/so.rb, line 5969 def self.inversion_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000948') end
A region located within an inversion site. (purl.obolibrary.org/obo/SO_0001048)
# File lib/biointerchange/so.rb, line 6563 def self.inversion_site_part return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001048') end
To invert a subsection of sequence. (purl.obolibrary.org/obo/SO_0000047)
# File lib/biointerchange/so.rb, line 591 def self.invert return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000047') end
A quality of an insertion where the insert is in a cytologically inverted orientation. (purl.obolibrary.org/obo/SO_0001515)
# File lib/biointerchange/so.rb, line 9349 def self.inverted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001515') end
An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments. (purl.obolibrary.org/obo/SO_1000153)
# File lib/biointerchange/so.rb, line 13253 def self.inverted_insertional_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000153') end
An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segment. (purl.obolibrary.org/obo/SO_1000156)
# File lib/biointerchange/so.rb, line 13271 def self.inverted_interchromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000156') end
An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments. (purl.obolibrary.org/obo/SO_1000158)
# File lib/biointerchange/so.rb, line 13283 def self.inverted_intrachromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000158') end
The sequence is complementarily repeated on the opposite strand. It is a palindrome, and it may, or may not be hyphenated. Examples: GCTGATCAGC, or GCTGA—–TCAGC. (purl.obolibrary.org/obo/SO_0000294)
# File lib/biointerchange/so.rb, line 2085 def self.inverted_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000294') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000439)
# File lib/biointerchange/so.rb, line 2953 def self.inverted_ring_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000439') end
A tandem duplication where the individual regions are not in the same orientation. (purl.obolibrary.org/obo/SO_1000040)
# File lib/biointerchange/so.rb, line 12671 def self.inverted_tandem_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000040') end
A GATA promoter element with consensus sequence WGATAA, found in promoters of genes repressed in the presence of iron. (purl.obolibrary.org/obo/SO_0001851)
# File lib/biointerchange/so.rb, line 11311 def self.iron_repressed_GATA_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001851') end
A regulatory sequence found in the 5’ and 3’ UTRs of many mRNAs which encode iron-binding proteins. It has a hairpin structure and is recognized by trans-acting proteins known as iron-regulatory proteins. (purl.obolibrary.org/obo/SO_0001182)
# File lib/biointerchange/so.rb, line 7363 def self.iron_responsive_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001182') end
Determines whether the given URI is a class.
uri
-
URI that is tested for being a class
# File lib/biointerchange/so.rb, line 13847 def self.is_class?(uri) if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000000') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000001') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000002') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000003') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000004') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000005') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000006') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000007') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000008') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000009') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000010') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000011') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000012') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000013') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000014') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000015') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000016') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000017') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000018') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000020') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000021') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000022') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000023') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000024') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000025') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000026') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000027') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000028') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000029') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000030') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000031') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000032') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000033') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000034') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000035') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000036') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000037') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000038') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000039') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000040') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000041') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000042') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000043') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000044') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000045') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000046') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000047') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000048') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000049') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000050') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000051') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000052') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000053') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000054') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000055') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000056') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000057') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000058') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000059') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000060') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000061') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000062') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000063') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000064') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000065') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000066') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000067') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000068') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000069') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000070') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000071') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000072') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000073') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000074') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000075') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000076') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000077') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000078') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000079') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000080') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000081') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000082') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000083') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000084') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000085') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000086') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000087') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000088') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000089') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000090') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000091') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000092') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000093') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000094') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000095') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000096') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000097') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000098') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000099') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000100') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000101') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000102') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000103') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000104') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000105') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000106') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000107') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000108') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000109') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000110') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000111') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000112') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000113') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000114') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000115') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000116') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000117') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000118') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000119') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000120') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000121') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000122') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000123') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000124') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000125') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000126') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000127') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000128') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000129') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000130') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000131') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000132') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000133') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000134') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000135') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000136') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000137') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000138') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000139') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000140') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000141') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000142') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000143') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000144') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000145') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000146') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000147') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000148') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000149') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000150') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000151') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000152') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000153') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000154') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000155') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000156') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000157') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000158') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000159') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000160') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000161') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000162') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000163') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000164') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000165') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000166') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000167') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000168') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000169') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000170') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000171') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000172') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000173') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000174') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000175') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000176') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000177') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000178') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000179') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000180') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000181') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000182') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000183') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000184') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000185') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000186') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000187') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000188') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000189') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000190') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000191') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000192') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000193') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000194') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000195') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000196') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000197') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000198') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000199') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000200') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000201') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000202') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000203') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000204') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000205') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000206') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000207') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000208') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000209') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000210') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000211') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000212') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000213') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000214') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000215') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000216') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000217') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000218') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000219') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000220') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000221') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000222') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000223') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000224') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000225') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000226') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000227') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000228') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000229') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000230') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000231') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000232') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000233') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000234') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000235') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000236') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000237') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000238') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000239') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000240') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000241') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000242') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000243') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000244') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000245') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000246') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000247') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000248') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000249') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000250') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000251') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000252') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000253') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000254') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000255') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000256') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000257') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000258') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000259') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000260') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000261') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000262') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000263') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000264') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000265') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000266') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000267') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000268') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000269') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000270') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000271') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000272') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000273') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000274') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000275') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000276') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000277') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000278') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000279') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000280') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000281') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000282') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000283') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000284') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000285') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000286') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000287') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000288') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000289') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000290') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000291') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000292') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000293') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000294') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000295') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000296') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000297') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000298') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000299') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000300') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000301') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000302') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000303') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000304') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000305') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000306') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000307') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000308') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000309') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000310') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000311') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000312') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000313') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000314') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000315') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000316') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000317') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000318') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000319') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000320') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000321') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000322') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000323') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000324') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000325') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000326') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000327') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000328') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000329') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000330') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000331') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000332') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000333') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000334') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000335') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000336') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000337') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000338') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000339') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000340') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000341') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000342') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000343') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000344') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000345') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000346') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000347') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000348') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000349') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000350') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000351') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000352') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000353') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000354') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000355') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000356') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000357') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000359') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000360') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000361') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000362') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000363') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000364') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000365') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000366') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000367') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000368') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000369') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000370') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000371') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000372') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000373') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000374') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000375') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000376') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000377') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000378') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000379') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000380') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000381') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000382') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000383') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000384') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000385') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000386') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000387') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000388') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000389') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000390') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000391') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000392') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000393') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000394') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000395') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000396') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000397') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000398') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000399') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000400') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000401') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000402') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000403') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000404') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000405') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000406') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000407') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000408') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000409') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000410') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000411') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000412') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000413') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000414') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000415') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000416') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000417') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000418') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000419') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000420') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000421') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000422') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000423') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000424') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000425') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000426') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000427') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000428') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000429') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000430') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000431') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000432') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000433') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000434') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000435') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000436') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000437') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000438') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000439') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000440') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000441') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000442') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000443') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000444') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000445') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000446') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000447') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000448') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000449') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000450') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000451') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000452') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000453') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000454') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000455') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000456') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000457') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000458') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000459') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000460') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000461') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000462') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000463') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000464') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000465') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000466') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000467') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000468') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000469') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000470') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000471') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000472') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000473') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000474') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000475') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000476') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000477') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000478') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000479') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000480') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000481') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000482') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000483') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000484') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000485') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000486') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000487') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000488') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000489') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000490') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000491') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000492') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000493') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000494') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000495') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000496') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000497') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000498') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000499') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000500') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000501') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000502') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000503') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000504') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000505') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000506') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000507') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000508') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000509') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000510') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000511') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000512') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000513') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000514') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000515') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000516') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000517') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000518') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000519') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000520') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000521') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000522') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000523') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000524') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000525') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000526') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000527') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000528') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000529') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000530') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000531') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000532') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000533') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000534') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000535') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000536') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000537') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000538') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000539') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000540') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000541') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000542') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000543') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000544') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000545') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000546') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000547') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000548') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000549') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000550') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000551') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000552') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000553') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000554') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000555') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000556') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000557') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000558') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000559') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000560') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000561') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000562') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000563') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000564') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000565') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000566') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000567') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000568') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000569') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000570') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000571') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000572') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000573') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000574') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000575') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000576') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000577') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000578') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000579') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000580') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000581') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000582') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000583') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000584') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000585') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000586') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000587') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000588') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000589') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000590') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000591') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000592') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000593') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000594') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000595') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000596') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000597') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000598') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000599') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000600') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000601') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000602') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000603') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000604') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000605') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000606') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000607') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000608') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000609') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000610') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000611') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000612') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000613') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000614') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000615') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000616') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000617') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000618') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000619') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000620') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000621') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000622') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000623') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000624') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000625') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000626') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000627') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000628') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000629') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000630') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000631') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000632') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000633') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000634') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000635') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000636') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000637') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000638') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000639') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000640') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000641') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000642') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000643') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000644') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000645') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000646') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000647') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000648') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000649') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000650') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000651') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000652') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000653') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000654') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000655') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000656') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000657') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000658') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000659') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000660') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000661') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000662') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000663') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000664') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000665') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000666') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000667') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000668') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000669') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000670') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000671') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000672') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000673') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000674') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000675') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000676') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000677') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000678') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000679') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000680') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000681') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000682') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000683') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000684') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000685') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000686') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000687') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000688') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000689') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000690') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000691') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000692') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000693') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000694') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000695') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000696') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000697') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000698') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000699') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000700') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000701') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000702') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000703') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000704') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000705') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000706') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000707') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000708') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000709') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000710') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000711') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000712') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000713') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000714') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000715') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000716') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000717') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000718') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000719') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000720') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000721') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000722') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000723') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000724') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000725') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000726') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000727') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000728') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000729') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000730') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000731') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000732') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000733') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000734') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000735') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000736') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000737') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000738') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000739') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000740') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000741') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000742') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000743') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000744') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000745') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000746') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000747') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000748') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000749') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000750') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000751') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000752') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000753') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000754') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000755') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000756') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000757') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000758') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000759') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000760') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000761') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000762') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000763') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000764') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000765') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000766') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000767') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000768') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000769') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000770') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000771') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000772') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000773') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000774') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000775') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000776') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000777') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000778') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000779') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000780') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000781') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000782') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000783') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000784') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000785') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000786') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000787') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000788') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000789') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000790') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000791') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000792') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000793') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000794') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000795') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000796') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000797') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000798') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000799') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000800') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000801') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000802') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000803') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000804') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000805') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000806') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000807') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000808') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000809') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000810') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000811') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000812') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000813') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000814') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000815') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000816') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000817') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000818') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000819') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000820') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000821') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000822') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000823') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000824') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000825') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000828') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000829') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000830') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000831') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000832') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000833') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000834') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000835') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000836') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000837') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000838') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000839') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000840') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000841') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000842') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000843') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000844') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000845') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000846') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000847') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000848') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000849') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000850') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000851') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000852') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000853') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000854') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000855') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000856') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000857') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000858') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000859') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000860') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000861') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000862') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000863') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000864') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000865') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000866') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000867') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000868') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000869') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000870') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000871') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000872') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000873') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000874') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000875') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000876') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000877') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000878') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000879') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000880') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000881') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000882') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000883') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000884') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000885') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000886') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000887') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000888') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000889') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000890') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000891') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000892') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000893') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000894') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000895') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000896') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000897') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000898') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000899') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000900') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000901') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000902') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000903') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000904') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000905') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000906') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000907') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000908') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000909') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000910') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000911') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000912') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000913') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000914') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000915') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000916') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000917') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000918') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000919') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000920') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000921') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000922') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000923') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000924') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000925') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000926') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000927') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000928') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000929') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000930') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000931') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000932') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000933') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000934') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000935') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000936') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000937') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000938') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000939') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000940') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000941') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000942') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000943') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000944') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000945') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000946') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000947') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000948') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000949') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000950') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000951') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000952') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000953') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000954') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000955') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000956') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000957') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000958') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000959') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000960') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000961') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000962') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000963') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000964') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000965') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000966') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000967') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000968') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000969') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000970') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000971') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000972') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000973') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000975') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000976') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000977') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000978') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000979') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000980') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000981') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000982') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000983') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000984') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000985') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000986') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000987') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000988') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000989') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000990') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000991') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000992') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000993') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000994') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000995') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000996') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000997') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000998') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000999') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001000') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001001') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001002') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001003') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001004') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001005') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001006') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001007') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001008') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001009') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001010') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001011') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001012') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001013') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001014') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001015') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001016') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001017') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001018') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001019') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001020') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001021') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001022') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001023') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001024') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001025') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001026') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001027') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001028') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001029') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001030') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001031') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001032') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001033') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001034') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001035') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001036') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001037') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001038') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001039') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001040') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001041') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001042') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001043') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001044') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001045') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001046') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001047') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001048') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001049') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001050') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001051') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001052') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001053') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001054') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001055') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001056') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001057') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001058') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001059') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001060') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001061') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001062') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001063') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001064') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001066') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001067') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001068') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001070') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001071') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001072') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001073') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001074') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001075') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001076') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001077') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001078') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001079') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001080') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001081') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001082') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001083') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001084') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001085') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001086') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001087') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001088') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001089') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001090') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001091') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001092') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001093') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001094') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001095') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001096') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001097') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001098') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001099') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001100') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001101') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001102') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001103') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001104') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001105') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001106') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001107') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001108') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001109') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001110') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001111') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001112') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001113') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001114') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001115') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001116') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001117') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001118') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001119') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001120') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001121') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001122') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001123') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001124') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001125') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001126') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001127') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001128') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001129') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001130') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001131') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001132') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001133') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001134') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001135') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001136') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001137') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001138') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001139') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001140') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001141') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001142') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001143') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001144') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001145') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001146') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001147') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001148') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001149') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001150') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001151') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001152') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001153') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001154') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001155') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001156') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001157') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001158') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001159') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001160') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001161') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001162') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001163') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001164') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001165') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001166') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001167') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001168') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001169') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001170') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001171') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001172') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001173') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001174') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001175') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001176') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001177') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001178') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001179') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001180') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001181') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001182') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001183') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001184') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001185') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001186') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001187') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001188') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001189') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001190') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001191') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001192') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001193') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001194') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001195') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001196') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001197') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001198') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001199') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001200') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001201') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001202') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001203') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001204') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001205') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001206') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001207') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001208') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001209') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001210') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001211') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001212') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001213') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001214') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001215') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001216') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001217') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001218') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001219') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001220') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001221') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001222') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001223') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001224') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001225') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001226') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001227') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001228') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001229') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001230') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001231') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001232') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001233') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001234') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001235') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001236') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001237') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001238') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001239') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001240') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001241') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001243') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001244') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001245') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001246') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001247') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001248') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001249') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001250') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001251') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001252') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001253') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001254') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001255') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001256') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001257') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001258') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001259') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001260') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001261') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001262') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001263') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001264') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001265') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001266') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001267') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001268') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001269') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001270') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001271') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001272') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001273') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001274') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001275') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001276') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001277') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001278') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001279') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001280') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001281') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001282') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001283') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001284') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001285') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001286') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001287') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001288') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001289') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001290') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001291') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001292') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001293') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001294') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001295') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001296') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001297') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001298') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001299') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001300') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001301') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001302') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001303') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001304') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001305') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001306') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001307') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001308') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001309') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001310') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001311') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001312') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001313') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001314') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001315') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001316') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001317') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001318') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001319') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001320') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001321') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001322') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001323') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001324') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001325') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001326') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001327') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001328') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001329') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001330') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001331') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001332') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001333') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001334') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001335') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001336') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001337') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001338') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001339') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001340') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001341') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001342') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001343') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001344') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001345') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001346') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001347') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001348') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001349') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001350') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001351') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001352') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001353') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001354') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001355') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001356') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001357') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001358') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001359') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001360') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001361') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001362') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001363') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001364') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001365') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001366') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001367') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001368') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001369') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001370') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001371') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001372') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001373') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001374') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001375') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001376') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001377') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001378') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001379') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001380') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001381') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001382') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001383') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001384') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001385') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001386') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001387') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001388') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001389') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001390') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001391') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001392') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001393') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001394') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001395') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001396') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001397') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001398') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001399') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001400') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001401') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001402') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001403') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001404') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001405') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001406') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001407') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001408') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001409') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001410') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001411') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001412') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001413') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001414') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001415') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001416') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001417') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001418') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001419') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001420') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001421') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001422') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001423') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001424') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001425') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001426') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001427') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001428') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001429') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001431') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001432') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001433') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001434') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001435') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001436') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001437') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001438') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001439') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001440') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001441') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001442') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001443') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001444') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001445') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001446') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001447') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001448') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001449') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001450') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001451') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001452') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001453') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001454') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001455') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001456') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001457') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001458') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001459') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001460') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001461') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001462') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001463') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001464') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001465') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001466') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001467') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001468') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001469') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001470') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001471') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001472') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001473') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001474') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001475') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001476') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001477') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001478') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001479') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001480') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001481') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001482') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001483') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001484') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001485') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001486') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001487') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001488') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001489') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001490') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001491') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001492') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001493') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001494') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001495') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001496') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001497') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001498') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001499') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001500') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001501') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001502') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001503') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001504') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001505') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001506') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001507') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001508') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001509') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001510') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001511') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001512') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001513') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001514') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001515') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001516') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001517') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001518') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001519') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001520') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001521') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001522') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001523') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001524') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001525') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001526') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001527') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001528') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001529') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001530') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001531') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001532') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001533') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001534') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001535') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001536') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001537') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001538') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001539') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001540') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001541') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001542') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001543') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001544') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001545') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001546') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001547') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001548') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001549') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001550') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001551') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001552') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001553') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001554') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001555') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001556') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001557') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001558') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001559') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001560') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001561') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001562') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001563') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001564') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001565') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001566') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001567') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001568') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001569') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001570') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001571') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001572') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001573') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001574') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001575') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001576') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001577') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001578') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001579') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001580') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001582') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001583') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001585') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001586') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001587') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001589') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001590') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001591') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001592') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001593') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001594') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001595') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001596') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001597') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001598') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001599') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001600') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001601') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001602') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001603') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001604') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001605') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001606') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001607') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001608') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001609') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001610') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001611') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001612') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001613') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001614') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001615') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001616') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001617') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001618') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001619') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001620') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001621') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001622') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001623') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001624') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001626') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001627') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001628') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001629') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001630') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001631') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001632') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001633') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001634') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001635') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001636') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001637') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001638') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001639') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001640') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001641') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001642') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001643') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001644') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001645') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001646') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001647') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001648') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001649') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001650') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001653') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001654') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001655') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001656') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001657') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001658') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001659') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001660') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001661') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001662') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001663') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001664') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001665') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001666') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001667') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001668') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001669') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001670') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001671') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001672') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001673') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001674') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001675') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001676') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001677') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001678') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001679') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001680') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001681') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001682') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001683') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001684') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001685') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001686') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001687') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001688') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001689') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001690') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001691') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001692') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001693') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001694') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001695') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001696') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001697') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001698') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001699') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001700') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001701') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001702') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001703') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001704') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001705') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001706') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001707') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001708') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001709') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001710') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001711') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001712') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001713') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001714') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001715') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001716') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001717') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001718') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001719') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001720') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001721') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001722') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001723') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001724') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001725') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001726') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001727') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001728') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001729') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001730') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001731') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001732') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001733') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001734') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001735') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001736') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001737') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001738') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001739') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001740') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001741') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001742') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001743') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001744') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001745') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001746') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001747') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001748') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001749') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001750') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001751') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001752') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001753') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001754') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001755') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001756') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001757') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001758') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001759') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001760') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001761') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001762') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001763') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001764') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001765') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001766') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001767') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001768') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001769') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001770') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001771') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001772') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001773') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001774') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001775') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001776') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001777') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001778') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001779') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001780') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001781') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001782') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001784') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001785') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001786') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001787') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001788') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001789') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001790') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001791') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001792') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001793') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001794') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001795') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001796') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001797') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001798') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001799') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001800') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001801') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001802') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001803') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001804') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001805') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001806') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001807') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001808') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001809') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001810') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001811') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001812') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001813') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001814') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001815') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001816') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001817') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001818') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001819') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001820') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001821') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001822') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001823') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001824') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001825') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001826') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001827') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001828') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001829') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001830') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001831') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001832') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001833') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001834') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001835') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001836') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001837') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001838') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001839') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001840') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001841') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001842') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001843') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001844') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001845') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001846') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001847') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001848') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001849') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001850') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001851') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001852') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001853') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001854') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001855') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001856') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001857') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001858') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001859') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001860') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001861') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001862') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001863') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001864') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001865') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001866') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001867') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001868') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001869') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001870') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001871') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001872') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001873') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001874') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001875') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001876') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001877') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001878') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001879') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001880') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001881') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001882') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001883') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001884') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001885') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001886') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001887') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001888') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001889') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001890') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001891') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001892') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001893') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001894') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001895') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001896') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001897') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001898') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001899') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001900') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001901') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001902') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001903') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001904') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001905') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001906') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001907') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001908') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001909') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001910') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001911') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001912') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001913') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001914') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001915') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001916') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001917') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001918') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001919') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001920') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001921') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001922') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001923') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001924') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001925') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001926') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001927') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001928') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001929') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001930') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001931') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001932') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001933') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001934') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001935') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001936') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001937') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001938') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001939') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001940') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001941') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001942') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001943') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001944') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001945') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001946') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001947') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001948') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001949') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001950') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001951') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001952') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001953') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001954') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001955') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001956') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001957') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001958') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001959') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001960') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001961') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001962') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001963') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001964') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001965') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001966') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001967') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001968') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001969') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001970') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001971') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001972') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001973') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001974') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001975') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001976') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001977') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001978') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001979') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001980') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001981') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001982') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001983') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001984') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001985') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001986') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001987') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001988') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001989') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001990') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001991') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001992') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001993') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001994') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001995') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001996') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001997') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001998') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001999') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002000') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002001') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002002') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002003') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002004') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002005') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002006') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002007') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005836') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005837') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005841') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005843') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005845') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005847') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005848') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005849') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005850') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005851') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005852') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005853') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005854') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005855') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005856') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005857') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005858') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100001') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100002') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100003') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100004') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100005') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100006') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100007') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100008') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100009') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100010') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100011') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100012') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100013') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100014') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100015') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100016') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100017') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100018') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100019') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100020') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100021') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000002') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000005') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000008') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000009') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000010') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000011') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000012') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000013') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000014') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000015') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000016') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000017') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000018') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000019') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000020') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000021') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000022') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000023') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000024') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000025') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000026') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000027') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000028') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000029') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000030') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000031') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000032') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000035') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000036') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000037') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000038') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000039') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000040') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000041') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000042') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000043') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000044') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000045') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000046') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000047') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000048') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000049') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000050') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000054') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000055') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000056') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000057') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000058') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000059') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000060') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000061') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000062') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000063') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000064') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000065') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000066') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000067') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000068') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000069') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000070') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000071') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000072') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000073') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000074') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000075') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000076') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000078') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000079') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000080') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000081') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000082') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000083') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000084') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000085') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000086') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000087') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000088') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000089') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000092') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000093') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000094') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000095') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000096') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000097') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000098') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000099') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000100') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000101') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000102') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000103') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000104') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000105') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000106') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000107') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000108') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000109') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000110') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000111') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000112') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000115') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000116') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000117') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000118') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000119') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000120') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000121') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000122') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000123') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000124') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000125') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000126') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000127') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000132') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000134') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000136') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000138') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000140') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000141') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000142') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000143') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000144') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000145') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000146') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000147') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000148') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000149') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000150') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000151') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000152') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000153') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000154') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000155') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000156') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000157') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000158') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000159') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000160') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000161') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000162') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000170') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000171') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000173') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000175') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000180') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000181') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000182') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000183') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000184') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000185') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000186') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001186') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001187') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001188') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001189') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001190') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001191') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001192') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001193') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001194') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001195') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001196') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001197') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001217') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001244') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001246') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001247') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001249') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001251') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001254') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001255') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001259') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001260') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001261') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001262') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001263') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001264') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001265') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001266') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001267') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001268') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001269') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001270') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001271') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001272') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001273') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001274') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001275') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001277') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001279') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001280') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001281') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001282') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001283') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001284') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001285') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001286') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001287') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001288') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_2000061') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/SO_3000000') then return true end return false end
R is_consecutive_sequence_of
R iff every instance of R is equivalent to a collection of instances of U:u1, u2, un, such that no pair of ux uy is overlapping and for all ux, it is adjacent to ux-1 and ux+1, with the exception of the initial and terminal u1,and un (which may be identical). (purl.obolibrary.org/obo/so_2_5_2.obo#is_consecutive_sequence_of)
# File lib/biointerchange/so.rb, line 161 def self.is_consecutive_sequence_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#is_consecutive_sequence_of') end
Determines whether the given URI is a datatype property.
uri
-
URI that is tested for being a datatype property
# File lib/biointerchange/so.rb, line 13840 def self.is_datatype_property?(uri) return false end
Determines whether the given URI is a named individual.
uri
-
URI that is tested for being a named individual
# File lib/biointerchange/so.rb, line 20544 def self.is_named_individual?(uri) if uri == RDF::URI.new('http://purl.obolibrary.org/obo/anonymous#variant_of') then return true end return false end
Determines whether the given URI is an object property.
uri
-
URI that is tested for being an object property
# File lib/biointerchange/so.rb, line 13680 def self.is_object_property?(uri) if uri == RDF::URI.new('http://purl.obolibrary.org/obo/part_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#adjacent_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#associated_with') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#complete_evidence_for_feature') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#connects_on') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#contained_by') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#contains') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#derives_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#disconnected_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#edited_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#edited_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#evidence_for_feature') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#exemplar_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#finished_by') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#finishes') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#gained') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#genome_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#guided_by') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#guides') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_integral_part') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_origin') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_part') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#has_quality') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#homologous_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#integral_part_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#is_consecutive_sequence_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#lost') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#maximally_overlaps') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#member_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#non_functional_homolog_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#orthologous_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#overlaps') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#paralogous_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#part_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#partial_evidence_for_feature') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#position_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#processed_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#processed_into') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#recombined_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#recombined_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#sequence_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#similar_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#started_by') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#starts') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_from') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#translates_to') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#translation_of') then return true end if uri == RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#variant_of') then return true end return false end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001438)
# File lib/biointerchange/so.rb, line 8887 def self.isoleucine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001438') end
A primary transcript encoding isoleucyl tRNA (SO:0000263). (purl.obolibrary.org/obo/SO_0000220)
# File lib/biointerchange/so.rb, line 1641 def self.isoleucine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000220') end
A tRNA sequence that has an isoleucine anticodon, and a 3’ isoleucine binding region. (purl.obolibrary.org/obo/SO_0000263)
# File lib/biointerchange/so.rb, line 1899 def self.isoleucyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000263') end
Isowyosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001342)
# File lib/biointerchange/so.rb, line 8317 def self.isowyosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001342') end
A sequence_feature
with an extent of zero. (purl.obolibrary.org/obo/SO_0000699)
# File lib/biointerchange/so.rb, line 4517 def self.junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000699') end
A kinetoplast is an interlocked network of thousands of minicircles and tens of maxi circles, located near the base of the flagellum of some protozoan species. (purl.obolibrary.org/obo/SO_0000741)
# File lib/biointerchange/so.rb, line 4769 def self.kinetoplast return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000741') end
A gene located in kinetoplast sequence. (purl.obolibrary.org/obo/SO_0000089)
# File lib/biointerchange/so.rb, line 851 def self.kinetoplast_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000089') end
A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5’ UTR
and CDS
sequence. (purl.obolibrary.org/obo/SO_0001647)
# File lib/biointerchange/so.rb, line 10117 def self.kozak_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001647') end
LS is an autosynaptic chromosome carrying the two left (L = levo) telomeres. (purl.obolibrary.org/obo/SO_1000143)
# File lib/biointerchange/so.rb, line 13193 def self.laevosynaptic_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000143') end
A linear clone derived from lambda bacteriophage. The genes involved in the lysogenic pathway are removed from the from the viral DNA
. Up to 25 kb of foreign DNA
can then be inserted into the lambda genome. (purl.obolibrary.org/obo/SO_0000160)
# File lib/biointerchange/so.rb, line 1277 def self.lambda_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000160') end
The lambda bacteriophage is the vector for the linear lambda clone. The genes involved in the lysogenic pathway are removed from the from the viral DNA
. Up to 25 kb of foreign DNA
can then be inserted into the lambda genome. (purl.obolibrary.org/obo/SO_0000754)
# File lib/biointerchange/so.rb, line 4847 def self.lambda_vector return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000754') end
Ribosomal RNA
transcript that structures the large subunit of the ribosome. (purl.obolibrary.org/obo/SO_0000651)
# File lib/biointerchange/so.rb, line 4229 def self.large_subunit_rRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000651') end
A kind of intron whereby the excision is driven by lariat formation. (purl.obolibrary.org/obo/SO_0001958)
# File lib/biointerchange/so.rb, line 11957 def self.lariat_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001958') end
A left handed helix is a region of peptide where the coiled conformation turns in an anticlockwise, left handed screw. (purl.obolibrary.org/obo/SO_0001115)
# File lib/biointerchange/so.rb, line 6961 def self.left_handed_peptide_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001115') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001773)
# File lib/biointerchange/so.rb, line 10849 def self.lethal_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001773') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001437)
# File lib/biointerchange/so.rb, line 8881 def self.leucine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001437') end
A primary transcript encoding leucyl tRNA (SO:0000264). (purl.obolibrary.org/obo/SO_0000221)
# File lib/biointerchange/so.rb, line 1647 def self.leucine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000221') end
A chromosome with origin in a leucoplast. (purl.obolibrary.org/obo/SO_0000823)
# File lib/biointerchange/so.rb, line 5231 def self.leucoplast_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000823') end
A plastid gene from leucoplast sequence. (purl.obolibrary.org/obo/SO_0000095)
# File lib/biointerchange/so.rb, line 887 def self.leucoplast_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000095') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000747)
# File lib/biointerchange/so.rb, line 4805 def self.leucoplast_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000747') end
A tRNA sequence that has a leucine anticodon, and a 3’ leucine binding region. (purl.obolibrary.org/obo/SO_0000264)
# File lib/biointerchange/so.rb, line 1905 def self.leucyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000264') end
A sequence variant which alters the level of a transcript. (purl.obolibrary.org/obo/SO_0001540)
# File lib/biointerchange/so.rb, line 9499 def self.level_of_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001540') end
A binding site that, in the molecule, interacts selectively and non-covalently with a small molecule such as a drug, or hormone. (purl.obolibrary.org/obo/SO_0001657)
# File lib/biointerchange/so.rb, line 10153 def self.ligand_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001657') end
A read produced by ligation based sequencing technologies. (purl.obolibrary.org/obo/SO_0001425)
# File lib/biointerchange/so.rb, line 8815 def self.ligation_based_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001425') end
A multiexonic non-coding RNA
transcribed by RNA
polymerase II. (purl.obolibrary.org/obo/SO_0001463)
# File lib/biointerchange/so.rb, line 9037 def self.lincRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001463') end
A gene that encodes large intervening non-coding RNA
. (purl.obolibrary.org/obo/SO_0001641)
# File lib/biointerchange/so.rb, line 10081 def self.lincRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001641') end
A quality of a nucleotide polymer that has a 3’-terminal residue and a 5’-terminal residue. (purl.obolibrary.org/obo/SO_0000987)
# File lib/biointerchange/so.rb, line 6197 def self.linear return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000987') end
Structural unit composed of a self-replicating, double-stranded, linear DNA
molecule. (purl.obolibrary.org/obo/SO_0000957)
# File lib/biointerchange/so.rb, line 6023 def self.linear_double_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000957') end
Structural unit composed of a self-replicating, double-stranded, linear RNA
molecule. (purl.obolibrary.org/obo/SO_0000964)
# File lib/biointerchange/so.rb, line 6065 def self.linear_double_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000964') end
Structural unit composed of a self-replicating, single-stranded, linear DNA
molecule. (purl.obolibrary.org/obo/SO_0000959)
# File lib/biointerchange/so.rb, line 6035 def self.linear_single_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000959') end
Structural unit composed of a self-replicating, single-stranded, linear RNA
molecule. (purl.obolibrary.org/obo/SO_0000963)
# File lib/biointerchange/so.rb, line 6059 def self.linear_single_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000963') end
A group of loci that can be grouped in a linear order representing the different degrees of linkage among the genes concerned. (purl.obolibrary.org/obo/SO_0000018)
# File lib/biointerchange/so.rb, line 423 def self.linkage_group return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000018') end
A peptide that acts as a signal for both membrane translocation and lipid attachment in prokaryotes. (purl.obolibrary.org/obo/SO_0100009)
# File lib/biointerchange/so.rb, line 12401 def self.lipoprotein_signal_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100009') end
A non-coding RNA
over 200nucleotides in length. (purl.obolibrary.org/obo/SO_0001877)
# File lib/biointerchange/so.rb, line 11467 def self.lnc_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001877') end
A DNA
region that includes DNAse hypersensitive sites located 5’ to a gene that confers the high-level, position-independent, and copy number-dependent expression to that gene. (purl.obolibrary.org/obo/SO_0000037)
# File lib/biointerchange/so.rb, line 531 def self.locus_control_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000037') end
A sequence directly repeated at both ends of a defined sequence, of the sort typically found in retroviruses. (purl.obolibrary.org/obo/SO_0000286)
# File lib/biointerchange/so.rb, line 2037 def self.long_terminal_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000286') end
A functional variant whereby the sequence alteration causes a loss of function of one allele of a gene. (purl.obolibrary.org/obo/SO_0001786)
# File lib/biointerchange/so.rb, line 10921 def self.loss_of_heterozygosity return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001786') end
X lost Y if X is a variant_of
X’ and Y part of X’ but not X. (purl.obolibrary.org/obo/so_2_5_2.obo#lost)
# File lib/biointerchange/so.rb, line 167 def self.lost return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#lost') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001004)
# File lib/biointerchange/so.rb, line 6299 def self.low_complexity return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001004') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001005)
# File lib/biointerchange/so.rb, line 6305 def self.low_complexity_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001005') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000346)
# File lib/biointerchange/so.rb, line 2397 def self.loxP_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000346') end
Lysidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001289)
# File lib/biointerchange/so.rb, line 7999 def self.lysidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001289') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001450)
# File lib/biointerchange/so.rb, line 8959 def self.lysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001450') end
A primary transcript encoding lysyl tRNA (SO:0000265). (purl.obolibrary.org/obo/SO_0000222)
# File lib/biointerchange/so.rb, line 1653 def self.lysine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000222') end
A polypeptide region that targets a polypeptide to the lysosome. (purl.obolibrary.org/obo/SO_0001530)
# File lib/biointerchange/so.rb, line 9439 def self.lysosomal_localization_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001530') end
A tRNA sequence that has a lysine anticodon, and a 3’ lysine binding region. (purl.obolibrary.org/obo/SO_0000265)
# File lib/biointerchange/so.rb, line 1911 def self.lysyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000265') end
Messenger RNA
is the intermediate molecule between DNA
and protein. It includes UTR
and coding sequences. It does not contain introns. (purl.obolibrary.org/obo/SO_0000234)
# File lib/biointerchange/so.rb, line 1725 def self.mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000234') end
An attribute describing an mRNA feature. (purl.obolibrary.org/obo/SO_0000863)
# File lib/biointerchange/so.rb, line 5459 def self.mRNA_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000863') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000245)
# File lib/biointerchange/so.rb, line 1791 def self.mRNA_by_polyadenylation_status return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000245') end
A contig composed of mRNA_reads. (purl.obolibrary.org/obo/SO_0001829)
# File lib/biointerchange/so.rb, line 11179 def self.mRNA_contig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001829') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000247)
# File lib/biointerchange/so.rb, line 1803 def self.mRNA_not_polyadenylated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000247') end
A sequencer read of an mRNA substrate. (purl.obolibrary.org/obo/SO_0001827)
# File lib/biointerchange/so.rb, line 11167 def self.mRNA_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001827') end
A recoded_mRNA
that was modified by an alteration of codon meaning. (purl.obolibrary.org/obo/SO_1001265)
# File lib/biointerchange/so.rb, line 13535 def self.mRNA_recoded_by_codon_redefinition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001265') end
A recoded_mRNA
where translation was suspended at a particular codon and resumed at a particular non-overlapping downstream codon. (purl.obolibrary.org/obo/SO_1001264)
# File lib/biointerchange/so.rb, line 13529 def self.mRNA_recoded_by_translational_bypass return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001264') end
A region of an mRNA. (purl.obolibrary.org/obo/SO_0000836)
# File lib/biointerchange/so.rb, line 5297 def self.mRNA_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000836') end
An mRNA with a frameshift. (purl.obolibrary.org/obo/SO_0000108)
# File lib/biointerchange/so.rb, line 965 def self.mRNA_with_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000108') end
An mRNA with a minus 1 frameshift. (purl.obolibrary.org/obo/SO_0000282)
# File lib/biointerchange/so.rb, line 2013 def self.mRNA_with_minus_1_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000282') end
A mRNA with a minus 2 frameshift. (purl.obolibrary.org/obo/SO_0000335)
# File lib/biointerchange/so.rb, line 2331 def self.mRNA_with_minus_2_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000335') end
An mRNA with a plus 1 frameshift. (purl.obolibrary.org/obo/SO_0000321)
# File lib/biointerchange/so.rb, line 2247 def self.mRNA_with_plus_1_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000321') end
An mRNA with a plus 2 frameshift. (purl.obolibrary.org/obo/SO_0000329)
# File lib/biointerchange/so.rb, line 2295 def self.mRNA_with_plus_2_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000329') end
A chromosome originating in a macronucleus. (purl.obolibrary.org/obo/SO_0000824)
# File lib/biointerchange/so.rb, line 5237 def self.macronuclear_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000824') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000083)
# File lib/biointerchange/so.rb, line 815 def self.macronuclear_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000083') end
A sequence that is conserved, although rearranged relative to the micronucleus, in the macronucleus of a ciliate genome. (purl.obolibrary.org/obo/SO_0000672)
# File lib/biointerchange/so.rb, line 4355 def self.macronucleus_destined_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000672') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001238)
# File lib/biointerchange/so.rb, line 7699 def self.major_TSS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001238') end
Mannosyl_queuosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001320)
# File lib/biointerchange/so.rb, line 8185 def self.mannosyl_queuosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001320') end
A region of sequence, aligned to another sequence with some statistical significance, using an algorithm such as BLAST or SIM4. (purl.obolibrary.org/obo/SO_0000343)
# File lib/biointerchange/so.rb, line 2379 def self.match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000343') end
A part of a match, for example an hsp from blast is a match_part. (purl.obolibrary.org/obo/SO_0000039)
# File lib/biointerchange/so.rb, line 543 def self.match_part return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000039') end
A collection of match parts. (purl.obolibrary.org/obo/SO_0000038)
# File lib/biointerchange/so.rb, line 537 def self.match_set return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000038') end
Uniparental disomy is a sequence_alteration
where a diploid individual receives two copies for all or part of a chromosome from the mother and no copies of the same chromosome or region from the father. (purl.obolibrary.org/obo/SO_0001745)
# File lib/biointerchange/so.rb, line 10681 def self.maternal_uniparental_disomy return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001745') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001775)
# File lib/biointerchange/so.rb, line 10861 def self.maternal_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001775') end
The maternal copy of the gene is modified, rendering it transcriptionally silent. (purl.obolibrary.org/obo/SO_0000135)
# File lib/biointerchange/so.rb, line 1127 def self.maternally_imprinted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000135') end
A gene that is maternally_imprinted. (purl.obolibrary.org/obo/SO_0000888)
# File lib/biointerchange/so.rb, line 5609 def self.maternally_imprinted_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000888') end
A mathematically defined repeat (MDR) is a experimental feature that is determined by querying overlapping oligomers of length k against a database of shotgun sequence data and identifying regions in the query sequence that exceed a statistically determined threshold of repetitiveness. (purl.obolibrary.org/obo/SO_0001642)
# File lib/biointerchange/so.rb, line 10087 def self.mathematically_defined_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001642') end
A promoter element with consensus sequence ACAAT, found in promoters of mating type M-specific genes in fission yeast and bound by the transcription factor Mat1-Mc. (purl.obolibrary.org/obo/SO_0001852)
# File lib/biointerchange/so.rb, line 11317 def self.mating_type_M_box return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001852') end
A specialized region in the genomes of some yeast and fungi, the genes of which regulate mating type. (purl.obolibrary.org/obo/SO_0001789)
# File lib/biointerchange/so.rb, line 10939 def self.mating_type_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001789') end
DNA
motif that is a component of a mating type region. (purl.obolibrary.org/obo/SO_0001999)
# File lib/biointerchange/so.rb, line 12197 def self.mating_type_region_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001999') end
A DNA
region that is required for the binding of chromatin to the nuclear matrix. (purl.obolibrary.org/obo/SO_0000036)
# File lib/biointerchange/so.rb, line 525 def self.matrix_attachment_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000036') end
A transcript variant located with the sequence of the mature miRNA. (purl.obolibrary.org/obo/SO_0001620)
# File lib/biointerchange/so.rb, line 9961 def self.mature_miRNA_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001620') end
The polypeptide sequence that remains when the cleaved peptide regions have been cleaved from the immature peptide. (purl.obolibrary.org/obo/SO_0000419)
# File lib/biointerchange/so.rb, line 2829 def self.mature_protein_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000419') end
A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5’ and/or the 3’ ends, other than addition of bases. In bacteria functional mRNAs are usually not modified. (purl.obolibrary.org/obo/SO_0000233)
# File lib/biointerchange/so.rb, line 1719 def self.mature_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000233') end
A region of a mature transcript. (purl.obolibrary.org/obo/SO_0000834)
# File lib/biointerchange/so.rb, line 5285 def self.mature_transcript_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000834') end
A maxicircle is a replicon, part of a kinetoplast, that contains open reading frames and replicates via a rolling circle method. (purl.obolibrary.org/obo/SO_0000742)
# File lib/biointerchange/so.rb, line 4775 def self.maxicircle return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000742') end
A mitochondrial gene located in a maxicircle. (purl.obolibrary.org/obo/SO_0000654)
# File lib/biointerchange/so.rb, line 4247 def self.maxicircle_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000654') end
A maximally_overlaps
X iff all parts of A (including A itself) overlap both A and Y. (purl.obolibrary.org/obo/so_2_5_2.obo#maximally_overlaps)
# File lib/biointerchange/so.rb, line 173 def self.maximally_overlaps return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#maximally_overlaps') end
A subtype of part_of. Inverse is collection_of. Winston, M, Chaffin, R, Herrmann: A taxonomy of part-whole relations. Cognitive Science 1987, 11:417-444. (purl.obolibrary.org/obo/so_2_5_2.obo#member_of)
# File lib/biointerchange/so.rb, line 179 def self.member_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#member_of') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001217)
# File lib/biointerchange/so.rb, line 13451 def self.member_of_regulon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001217') end
Polypeptide region localized within the lipid bilayer where both ends traverse the same membrane. (purl.obolibrary.org/obo/SO_0001076)
# File lib/biointerchange/so.rb, line 6727 def self.membrane_peptide_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001076') end
Arrangement of the polypeptide with respect to the lipid bilayer. (purl.obolibrary.org/obo/SO_0001071)
# File lib/biointerchange/so.rb, line 6697 def self.membrane_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001071') end
A transmissible element containing genes involved in metabolism, analogous to the pathogenicity islands of gram negative bacteria. (purl.obolibrary.org/obo/SO_0000774)
# File lib/biointerchange/so.rb, line 4961 def self.metabolic_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000774') end
A binding site that, in the molecule, interacts selectively and non-covalently with metal ions. (purl.obolibrary.org/obo/SO_0001656)
# File lib/biointerchange/so.rb, line 10147 def self.metal_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001656') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001442)
# File lib/biointerchange/so.rb, line 8911 def self.methionine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001442') end
A primary transcript encoding methionyl tRNA (SO:0000266). (purl.obolibrary.org/obo/SO_0000223)
# File lib/biointerchange/so.rb, line 1659 def self.methionine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000223') end
A tRNA sequence that has a methionine anticodon, and a 3’ methionine binding region. (purl.obolibrary.org/obo/SO_0000266)
# File lib/biointerchange/so.rb, line 1917 def self.methionyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000266') end
A nucleotide modified by methylation. (purl.obolibrary.org/obo/SO_0000306)
# File lib/biointerchange/so.rb, line 2157 def self.methylated_DNA_base_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000306') end
A modified base in which adenine has been methylated. (purl.obolibrary.org/obo/SO_0000161)
# File lib/biointerchange/so.rb, line 1283 def self.methylated_adenine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000161') end
A methylated deoxy-cytosine. (purl.obolibrary.org/obo/SO_0000114)
# File lib/biointerchange/so.rb, line 1001 def self.methylated_cytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000114') end
A snoRNA that specifies the site of 2’-O-ribose methylation in an RNA
molecule by base pairing with a short sequence around the target residue. (purl.obolibrary.org/obo/SO_0005841)
# File lib/biointerchange/so.rb, line 12263 def self.methylation_guide_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005841') end
A primary transcript encoding a methylation guide small nucleolar RNA
. (purl.obolibrary.org/obo/SO_0000580)
# File lib/biointerchange/so.rb, line 3803 def self.methylation_guide_snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000580') end
A modified RNA
base in which methylhypoxanthine is bound to the ribose ring. (purl.obolibrary.org/obo/SO_0001233)
# File lib/biointerchange/so.rb, line 7669 def self.methylinosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001233') end
Methylwyosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001337)
# File lib/biointerchange/so.rb, line 8287 def self.methylwyosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001337') end
Small, ~22-nt, RNA
molecule that is the endogenous transcript of a miRNA gene. Micro RNAs are produced from precursor molecules (SO:0000647) that can form local hairpin structures, which ordinarily are processed (via the Dicer pathway) such that a single miRNA molecule accumulates from one arm of a hairpin precursor molecule. Micro RNAs may trigger the cleavage of their target molecules or act as translational repressors. (purl.obolibrary.org/obo/SO_0000276)
# File lib/biointerchange/so.rb, line 1977 def self.miRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000276') end
A region of the pri miRNA that basepairs with the guide to form the hairpin. (purl.obolibrary.org/obo/SO_0001473)
# File lib/biointerchange/so.rb, line 9097 def self.miRNA_antiguide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001473') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000571)
# File lib/biointerchange/so.rb, line 3749 def self.miRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000571') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001265)
# File lib/biointerchange/so.rb, line 7855 def self.miRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001265') end
The loop of the hairpin loop formed by folding of the pre-miRNA. (purl.obolibrary.org/obo/SO_0001246)
# File lib/biointerchange/so.rb, line 7741 def self.miRNA_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001246') end
A primary transcript encoding a micro RNA
. (purl.obolibrary.org/obo/SO_0000647)
# File lib/biointerchange/so.rb, line 4205 def self.miRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000647') end
A part of an miRNA primary_transcript. (purl.obolibrary.org/obo/SO_0001243)
# File lib/biointerchange/so.rb, line 7723 def self.miRNA_primary_transcript_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001243') end
The stem of the hairpin loop formed by folding of the pre-miRNA. (purl.obolibrary.org/obo/SO_0001245)
# File lib/biointerchange/so.rb, line 7735 def self.miRNA_stem return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001245') end
A miRNA target site is a binding site where the molecule is a micro RNA
. (purl.obolibrary.org/obo/SO_0000934)
# File lib/biointerchange/so.rb, line 5885 def self.miRNA_target_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000934') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000328)
# File lib/biointerchange/so.rb, line 2289 def self.microarray_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000328') end
A chromosome originating in a micronucleus. (purl.obolibrary.org/obo/SO_0000825)
# File lib/biointerchange/so.rb, line 5243 def self.micronuclear_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000825') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000084)
# File lib/biointerchange/so.rb, line 821 def self.micronuclear_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000084') end
A repeat_region
containing repeat_units of 2 to 10 bp repeated in tandem. (purl.obolibrary.org/obo/SO_0000289)
# File lib/biointerchange/so.rb, line 2055 def self.microsatellite return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000289') end
A primary transcript that donates the spliced leader to other mRNA. (purl.obolibrary.org/obo/SO_0000635)
# File lib/biointerchange/so.rb, line 4133 def self.mini_exon_donor_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000635') end
By definition, minigenes are short open-reading frames (ORF
), usually encoding approximately 9 to 20 amino acids, which are expressed in vivo (as distinct from being synthesized as peptide or protein ex vivo and subsequently injected). The in vivo synthesis confers a distinct advantage: the expressed sequences can enter both antigen presentation pathways, MHC I (inducing CD8+ T- cells, which are usually cytotoxic T-lymphocytes (CTL)) and MHC II (inducing CD4+ T-cells, usually ‘T-helpers’ (Th)); and can encounter B-cells, inducing antibody responses. Three main vector approaches have been used to deliver minigenes: viral vectors, bacterial vectors and plasmid DNA
. (purl.obolibrary.org/obo/SO_0000815)
# File lib/biointerchange/so.rb, line 5183 def self.mini_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000815') end
A minicircle is a replicon, part of a kinetoplast, that encodes for guide RNAs. (purl.obolibrary.org/obo/SO_0000980)
# File lib/biointerchange/so.rb, line 6155 def self.minicircle return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000980') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000975)
# File lib/biointerchange/so.rb, line 6125 def self.minicircle_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000975') end
A repeat region containing tandemly repeated sequences having a unit length of 10 to 40 bp. (purl.obolibrary.org/obo/SO_0000643)
# File lib/biointerchange/so.rb, line 4181 def self.minisatellite return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000643') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001239)
# File lib/biointerchange/so.rb, line 7705 def self.minor_TSS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001239') end
A conserved region about 10-bp upstream of the start point of bacterial transcription units which may be involved in binding RNA
polymerase; consensus=TAtAaT. This region is associated with sigma factor 70. (purl.obolibrary.org/obo/SO_0000175)
# File lib/biointerchange/so.rb, line 1367 def self.minus_10_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000175') end
A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54. (purl.obolibrary.org/obo/SO_0001673)
# File lib/biointerchange/so.rb, line 10249 def self.minus_12_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001673') end
A frameshift caused by deleting one base. (purl.obolibrary.org/obo/SO_0000866)
# File lib/biointerchange/so.rb, line 5477 def self.minus_1_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000866') end
A sequence variant which causes a disruption of the translational reading frame, by shifting one base ahead. (purl.obolibrary.org/obo/SO_0001592)
# File lib/biointerchange/so.rb, line 9793 def self.minus_1_frameshift_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001592') end
An attribute describing a translational frameshift of -1. (purl.obolibrary.org/obo/SO_1001262)
# File lib/biointerchange/so.rb, line 13517 def self.minus_1_translationally_frameshifted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001262') end
A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54. (purl.obolibrary.org/obo/SO_0001674)
# File lib/biointerchange/so.rb, line 10255 def self.minus_24_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001674') end
A frameshift caused by deleting two bases. (purl.obolibrary.org/obo/SO_0000867)
# File lib/biointerchange/so.rb, line 5483 def self.minus_2_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000867') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001593)
# File lib/biointerchange/so.rb, line 9799 def self.minus_2_frameshift_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001593') end
A conserved hexamer about 35-bp upstream of the start point of bacterial transcription units; consensus=TTGACa or TGTTGACA. This region is associated with sigma factor 70. (purl.obolibrary.org/obo/SO_0000176)
# File lib/biointerchange/so.rb, line 1373 def self.minus_35_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000176') end
A de-branched intron which mimics the structure of pre-miRNA and enters the miRNA processing pathway without Drosha mediated cleavage. (purl.obolibrary.org/obo/SO_0001034)
# File lib/biointerchange/so.rb, line 6479 def self.mirtron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001034') end
A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preserved. (purl.obolibrary.org/obo/SO_0001583)
# File lib/biointerchange/so.rb, line 9751 def self.missense_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001583') end
This terms is used by MO. (purl.obolibrary.org/obo/SO_0001032)
# File lib/biointerchange/so.rb, line 6467 def self.mitochondrial_DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001032') end
A sequencer read of a mitochondrial DNA
sample. (purl.obolibrary.org/obo/SO_0001929)
# File lib/biointerchange/so.rb, line 11779 def self.mitochondrial_DNA_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001929') end
A chromosome originating in a mitochondria. (purl.obolibrary.org/obo/SO_0000819)
# File lib/biointerchange/so.rb, line 5207 def self.mitochondrial_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000819') end
A contig of mitochondria derived sequences. (purl.obolibrary.org/obo/SO_0001921)
# File lib/biointerchange/so.rb, line 11731 def self.mitochondrial_contig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001921') end
This term is mapped to MGED. Do not obsolete without consulting MGED ontology. (purl.obolibrary.org/obo/SO_0000737)
# File lib/biointerchange/so.rb, line 4745 def self.mitochondrial_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000737') end
A scaffold composed of mitochondrial contigs. (purl.obolibrary.org/obo/SO_0001922)
# File lib/biointerchange/so.rb, line 11737 def self.mitochondrial_supercontig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001922') end
A polypeptide region that targets a polypeptide to the mitochondrion. (purl.obolibrary.org/obo/SO_0001808)
# File lib/biointerchange/so.rb, line 11053 def self.mitochondrial_targeting_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001808') end
An attribute describing a feature that has either intra-genome or intracellular mobility. (purl.obolibrary.org/obo/SO_0001234)
# File lib/biointerchange/so.rb, line 7675 def self.mobile return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001234') end
A kind of insertion where the inserted sequence is a mobile element. (purl.obolibrary.org/obo/SO_0001837)
# File lib/biointerchange/so.rb, line 11227 def self.mobile_element_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001837') end
A nucleotide region with either intra-genome or intracellular moblity, of varying length, which often carry the information necessary for transfer and recombination with the host genome. (purl.obolibrary.org/obo/SO_0001037)
# File lib/biointerchange/so.rb, line 6497 def self.mobile_genetic_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001037') end
An intron (mitochondrial, chloroplast, nuclear or prokaryotic) that encodes a double strand sequence specific endonuclease allowing for mobility. (purl.obolibrary.org/obo/SO_0000666)
# File lib/biointerchange/so.rb, line 4319 def self.mobile_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000666') end
A modified nucleotide, i.e. a nucleotide other than A, T, C. G. (purl.obolibrary.org/obo/SO_0000305)
# File lib/biointerchange/so.rb, line 2151 def self.modified_DNA_base return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000305') end
A post translationally modified alanine amino acid feature. (purl.obolibrary.org/obo/SO_0001387)
# File lib/biointerchange/so.rb, line 8587 def self.modified_L_alanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001387') end
A post translationally modified arginine amino acid feature. (purl.obolibrary.org/obo/SO_0001406)
# File lib/biointerchange/so.rb, line 8701 def self.modified_L_arginine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001406') end
A post translationally modified asparagine amino acid feature. (purl.obolibrary.org/obo/SO_0001388)
# File lib/biointerchange/so.rb, line 8593 def self.modified_L_asparagine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001388') end
A post translationally modified aspartic acid amino acid feature. (purl.obolibrary.org/obo/SO_0001389)
# File lib/biointerchange/so.rb, line 8599 def self.modified_L_aspartic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001389') end
A post translationally modified cysteine amino acid feature. (purl.obolibrary.org/obo/SO_0001390)
# File lib/biointerchange/so.rb, line 8605 def self.modified_L_cysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001390') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001391)
# File lib/biointerchange/so.rb, line 8611 def self.modified_L_glutamic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001391') end
A post translationally modified glutamine amino acid feature. (purl.obolibrary.org/obo/SO_0001394)
# File lib/biointerchange/so.rb, line 8629 def self.modified_L_glutamine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001394') end
A post translationally modified histidie amino acid feature. (purl.obolibrary.org/obo/SO_0001398)
# File lib/biointerchange/so.rb, line 8653 def self.modified_L_histidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001398') end
A post translationally modified isoleucine amino acid feature. (purl.obolibrary.org/obo/SO_0001396)
# File lib/biointerchange/so.rb, line 8641 def self.modified_L_isoleucine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001396') end
A post translationally modified leucine amino acid feature. (purl.obolibrary.org/obo/SO_0001401)
# File lib/biointerchange/so.rb, line 8671 def self.modified_L_leucine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001401') end
A post translationally modified lysine amino acid feature. (purl.obolibrary.org/obo/SO_0001400)
# File lib/biointerchange/so.rb, line 8665 def self.modified_L_lysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001400') end
A post translationally modified methionine amino acid feature. (purl.obolibrary.org/obo/SO_0001395)
# File lib/biointerchange/so.rb, line 8635 def self.modified_L_methionine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001395') end
A post translationally modified phenylalanine amino acid feature. (purl.obolibrary.org/obo/SO_0001397)
# File lib/biointerchange/so.rb, line 8647 def self.modified_L_phenylalanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001397') end
A post translationally modified proline amino acid feature. (purl.obolibrary.org/obo/SO_0001404)
# File lib/biointerchange/so.rb, line 8689 def self.modified_L_proline return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001404') end
A post translationally modified selenocysteine amino acid feature. (purl.obolibrary.org/obo/SO_0001402)
# File lib/biointerchange/so.rb, line 8677 def self.modified_L_selenocysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001402') end
A post translationally modified serine amino acid feature. (purl.obolibrary.org/obo/SO_0001399)
# File lib/biointerchange/so.rb, line 8659 def self.modified_L_serine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001399') end
A post translationally modified threonine amino acid feature. (purl.obolibrary.org/obo/SO_0001392)
# File lib/biointerchange/so.rb, line 8617 def self.modified_L_threonine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001392') end
A post translationally modified tryptophan amino acid feature. (purl.obolibrary.org/obo/SO_0001393)
# File lib/biointerchange/so.rb, line 8623 def self.modified_L_tryptophan return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001393') end
A post translationally modified tyrosine amino acid feature. (purl.obolibrary.org/obo/SO_0001405)
# File lib/biointerchange/so.rb, line 8695 def self.modified_L_tyrosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001405') end
A post translationally modified valine amino acid feature. (purl.obolibrary.org/obo/SO_0001403)
# File lib/biointerchange/so.rb, line 8683 def self.modified_L_valine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001403') end
A post_transcriptionally modified base. (purl.obolibrary.org/obo/SO_0000250)
# File lib/biointerchange/so.rb, line 1821 def self.modified_RNA_base_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000250') end
A modified adenine DNA
base feature. (purl.obolibrary.org/obo/SO_0001962)
# File lib/biointerchange/so.rb, line 11981 def self.modified_adenine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001962') end
A modified adenine is an adenine base feature that has been altered. (purl.obolibrary.org/obo/SO_0001273)
# File lib/biointerchange/so.rb, line 7903 def self.modified_adenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001273') end
A post translationally modified amino acid feature. (purl.obolibrary.org/obo/SO_0001385)
# File lib/biointerchange/so.rb, line 8575 def self.modified_amino_acid_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001385') end
A modified cytidine is a cytidine base feature which has been altered. (purl.obolibrary.org/obo/SO_0001275)
# File lib/biointerchange/so.rb, line 7915 def self.modified_cytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001275') end
A modified cytosine DNA
base feature. (purl.obolibrary.org/obo/SO_0001963)
# File lib/biointerchange/so.rb, line 11987 def self.modified_cytosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001963') end
A post translationally modified glycine amino acid feature. (purl.obolibrary.org/obo/SO_0001386)
# File lib/biointerchange/so.rb, line 8581 def self.modified_glycine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001386') end
A modified guanine DNA
base feature. (purl.obolibrary.org/obo/SO_0001964)
# File lib/biointerchange/so.rb, line 11993 def self.modified_guanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001964') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001276)
# File lib/biointerchange/so.rb, line 7921 def self.modified_guanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001276') end
A modified inosine is an inosine base feature that has been altered. (purl.obolibrary.org/obo/SO_0001274)
# File lib/biointerchange/so.rb, line 7909 def self.modified_inosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001274') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001277)
# File lib/biointerchange/so.rb, line 7927 def self.modified_uridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001277') end
A region that is involved a contact with another molecule. (purl.obolibrary.org/obo/SO_0100002)
# File lib/biointerchange/so.rb, line 12359 def self.molecular_contact_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100002') end
An attribute describing a sequence that contains the code for one gene product. (purl.obolibrary.org/obo/SO_0000878)
# File lib/biointerchange/so.rb, line 5549 def self.monocistronic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000878') end
An mRNA with either a single protein product, or for which the regions encoding all its protein products overlap. (purl.obolibrary.org/obo/SO_0000633)
# File lib/biointerchange/so.rb, line 4121 def self.monocistronic_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000633') end
A primary transcript encoding for one gene product. (purl.obolibrary.org/obo/SO_0000632)
# File lib/biointerchange/so.rb, line 4115 def self.monocistronic_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000632') end
A transcript that is monocistronic. (purl.obolibrary.org/obo/SO_0000665)
# File lib/biointerchange/so.rb, line 4313 def self.monocistronic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000665') end
A repeat_region
containing repeat_units of 1 bp that is repeated multiple times in tandem. (purl.obolibrary.org/obo/SO_0001934)
# File lib/biointerchange/so.rb, line 11809 def self.monomeric_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001934') end
An attribute describing a sequence composed of nucleobases bound to a morpholino backbone. A morpholino backbone consists of morpholine (CHEBI:34856) rings connected by phosphorodiamidate linkages. (purl.obolibrary.org/obo/SO_0001183)
# File lib/biointerchange/so.rb, line 7369 def self.morpholino_backbone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001183') end
Morpholino oligos are synthesized from four different Morpholino subunits, each of which contains one of the four genetic bases (A, C, G, T) linked to a 6-membered morpholine ring. Eighteen to 25 subunits of these four subunit types are joined in a specific order by non-ionic phosphorodiamidate intersubunit linkages to give a Morpholino. (purl.obolibrary.org/obo/SO_0000034)
# File lib/biointerchange/so.rb, line 513 def self.morpholino_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000034') end
A gene located in mitochondrial sequence. (purl.obolibrary.org/obo/SO_0000088)
# File lib/biointerchange/so.rb, line 845 def self.mt_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000088') end
Site which has been experimentally altered. (purl.obolibrary.org/obo/SO_0001148)
# File lib/biointerchange/so.rb, line 7159 def self.mutated_variant_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001148') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000106)
# File lib/biointerchange/so.rb, line 13031 def self.mutation_causing_inframe_polypeptide_N_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000106') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000109)
# File lib/biointerchange/so.rb, line 13049 def self.mutation_causing_out_of_frame_polypeptide_C_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000109') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000107)
# File lib/biointerchange/so.rb, line 13037 def self.mutation_causing_out_of_frame_polypeptide_N_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000107') end
. (purl.obolibrary.org/obo/SO_1000101)
# File lib/biointerchange/so.rb, line 13001 def self.mutation_causing_polypeptide_C_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000101') end
. (purl.obolibrary.org/obo/SO_1000100)
# File lib/biointerchange/so.rb, line 12995 def self.mutation_causing_polypeptide_N_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000100') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000108)
# File lib/biointerchange/so.rb, line 13043 def self.mutaton_causing_inframe_polypeptide_C_terminal_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000108') end
The amino-terminal positively-charged region of a signal peptide (approx 1-5 aa). (purl.obolibrary.org/obo/SO_0100014)
# File lib/biointerchange/so.rb, line 12431 def self.n_terminal_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100014') end
An attribute describing a feature that occurs in nature. (purl.obolibrary.org/obo/SO_0000782)
# File lib/biointerchange/so.rb, line 5009 def self.natural return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000782') end
A plasmid that occurs naturally. (purl.obolibrary.org/obo/SO_0001476)
# File lib/biointerchange/so.rb, line 9115 def self.natural_plasmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001476') end
TE that exists (or existed) in nature. (purl.obolibrary.org/obo/SO_0000797)
# File lib/biointerchange/so.rb, line 5099 def self.natural_transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000797') end
Describes the natural sequence variants due to polymorphisms, disease-associated mutations, RNA
editing and variations between strains, isolates or cultivars. (purl.obolibrary.org/obo/SO_0001147)
# File lib/biointerchange/so.rb, line 7153 def self.natural_variant_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001147') end
An RNA
transcript that does not encode for a protein rather the RNA
molecule is the gene product. (purl.obolibrary.org/obo/SO_0000655)
# File lib/biointerchange/so.rb, line 4253 def self.ncRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000655') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001263)
# File lib/biointerchange/so.rb, line 7843 def self.ncRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001263') end
Non-coding region of sequence similarity by descent from a common ancestor. (purl.obolibrary.org/obo/SO_0000334)
# File lib/biointerchange/so.rb, line 2325 def self.nc_conserved_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000334') end
A primary transcript that is never translated into a protein. (purl.obolibrary.org/obo/SO_0000483)
# File lib/biointerchange/so.rb, line 3217 def self.nc_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000483') end
The gene product is involved in its own transcriptional regulation where it decreases transcription. (purl.obolibrary.org/obo/SO_0000473)
# File lib/biointerchange/so.rb, line 3157 def self.negatively_autoregulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000473') end
A gene that is negatively autoreguated. (purl.obolibrary.org/obo/SO_0000891)
# File lib/biointerchange/so.rb, line 5627 def self.negatively_autoregulated_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000891') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001051)
# File lib/biointerchange/so.rb, line 6581 def self.nested_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001051') end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0001052)
Or:
A repeat that is disrupted by the insertion of another element. (http://purl.obolibrary.org/obo/SO_0001649)
# File lib/biointerchange/so.rb, line 6591 def self.nested_repeat return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001052'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001649') ] end
An NTR is a nested repeat of two distinct tandem motifs interspersed with each other. (purl.obolibrary.org/obo/SO_0001658)
# File lib/biointerchange/so.rb, line 10159 def self.nested_tandem_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001658') end
Either:
-- No comment or description provided. -- (http://purl.obolibrary.org/obo/SO_0001053)
Or:
A transposon that is disrupted by the insertion of another element. (http://purl.obolibrary.org/obo/SO_0001648)
# File lib/biointerchange/so.rb, line 6601 def self.nested_transposon return [ RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001053'), RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001648') ] end
An experimental region wherean analysis has been run and not produced any annotation. (purl.obolibrary.org/obo/SO_0100010)
# File lib/biointerchange/so.rb, line 12407 def self.no_output return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100010') end
A retrotransposon without long terminal repeat sequences. (purl.obolibrary.org/obo/SO_0000189)
# File lib/biointerchange/so.rb, line 1455 def self.non_LTR_retrotransposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000189') end
A polymeric tract, such as poly(dA), within a non_LTR_retrotransposon. (purl.obolibrary.org/obo/SO_0000433)
# File lib/biointerchange/so.rb, line 2913 def self.non_LTR_retrotransposon_polymeric_tract return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000433') end
Indicates that two consecutive residues in a fragment sequence are not consecutive in the full-length protein and that there are a number of unsequenced residues between them. (purl.obolibrary.org/obo/SO_0001083)
# File lib/biointerchange/so.rb, line 6769 def self.non_adjacent_residues return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001083') end
A 5’ splice site which does not have the sequence "GT". (SO:ke) (purl.obolibrary.org/obo/SO_0000679)
# File lib/biointerchange/so.rb, line 4397 def self.non_canonical_five_prime_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000679') end
A splice site where the donor and acceptor sites differ from the canonical form. (purl.obolibrary.org/obo/SO_0000674)
# File lib/biointerchange/so.rb, line 4367 def self.non_canonical_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000674') end
A start codon that is not the usual AUG sequence. (purl.obolibrary.org/obo/SO_0000680)
# File lib/biointerchange/so.rb, line 4403 def self.non_canonical_start_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000680') end
A 3’ splice site that does not have the sequence "AG". (SO:ke) (purl.obolibrary.org/obo/SO_0000678)
# File lib/biointerchange/so.rb, line 4391 def self.non_canonical_three_prime_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000678') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000106)
# File lib/biointerchange/so.rb, line 953 def self.non_capped_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000106') end
A sequence variant that changes non-coding exon sequence in a non-coding transcript. (purl.obolibrary.org/obo/SO_0001792)
# File lib/biointerchange/so.rb, line 10957 def self.non_coding_transcript_exon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001792') end
A transcript variant occurring within an intron of a non coding transcript. (purl.obolibrary.org/obo/SO_0001970)
# File lib/biointerchange/so.rb, line 12029 def self.non_coding_transcript_intron_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001970') end
A transcript variant of a non coding RNA
gene. (purl.obolibrary.org/obo/SO_0001619)
# File lib/biointerchange/so.rb, line 9955 def self.non_coding_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001619') end
A sequence variant of a codon causing the substitution of a non conservative amino acid for another in the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001608)
# File lib/biointerchange/so.rb, line 9889 def self.non_conservative_amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001608') end
A sequence variant whereby at least one base of a codon is changed resulting in a codon that encodes for an amino acid with different biochemical properties. (purl.obolibrary.org/obo/SO_0001586)
# File lib/biointerchange/so.rb, line 9763 def self.non_conservative_missense_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001586') end
Binding site for any chemical group (co-enzyme, prosthetic group, etc.). (purl.obolibrary.org/obo/SO_0001091)
# File lib/biointerchange/so.rb, line 6817 def self.non_covalent_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001091') end
Polypeptide region that is localized outside of a lipid bilayer and outside of the cytoplasm. (purl.obolibrary.org/obo/SO_0001074)
# File lib/biointerchange/so.rb, line 6715 def self.non_cytoplasmic_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001074') end
A relationship between a pseudogenic feature and its functional ancestor. (purl.obolibrary.org/obo/so_2_5_2.obo#non_functional_homolog_of)
# File lib/biointerchange/so.rb, line 185 def self.non_functional_homolog_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#non_functional_homolog_of') end
A pseudogene that arose from a means other than retrotransposition. (purl.obolibrary.org/obo/SO_0001760)
# File lib/biointerchange/so.rb, line 10771 def self.non_processed_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001760') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000011)
# File lib/biointerchange/so.rb, line 381 def self.non_protein_coding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000011') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001816)
# File lib/biointerchange/so.rb, line 11101 def self.non_synonymous return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001816') end
The residue at an extremity of the sequence is not the terminal residue. (purl.obolibrary.org/obo/SO_0001084)
# File lib/biointerchange/so.rb, line 6775 def self.non_terminal_residue return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001084') end
A region of the gene which is not transcribed. (purl.obolibrary.org/obo/SO_0000183)
# File lib/biointerchange/so.rb, line 1419 def self.non_transcribed_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000183') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000562)
# File lib/biointerchange/so.rb, line 3695 def self.nonamer_of_recombination_feature_of_vertebrate_immune_system_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000562') end
An exon that does not contain any codons. (purl.obolibrary.org/obo/SO_0000198)
# File lib/biointerchange/so.rb, line 1509 def self.noncoding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000198') end
The maximal intersection of exon and UTR
. (purl.obolibrary.org/obo/SO_0001214)
# File lib/biointerchange/so.rb, line 7555 def self.noncoding_region_of_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001214') end
The status of a whole genome sequence, where the assembly is high quality, closure approaches have been successful for most gaps, misassemblies and low quality regions. (purl.obolibrary.org/obo/SO_0001490)
# File lib/biointerchange/so.rb, line 9199 def self.noncontiguous_finished return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001490') end
A non-synonymous variant is an inframe, protein altering variant, resulting in a codon change. (purl.obolibrary.org/obo/SO_0001992)
# File lib/biointerchange/so.rb, line 12155 def self.nonsynonymous_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001992') end
An insertion the sequence of which cannot be mapped to the reference genome. (purl.obolibrary.org/obo/SO_0001838)
# File lib/biointerchange/so.rb, line 11233 def self.novel_sequence_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001838') end
A chromosome originating in a nucleus. (purl.obolibrary.org/obo/SO_0000828)
# File lib/biointerchange/so.rb, line 5249 def self.nuclear_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000828') end
A polypeptide region that targets a polypeptide to he cytoplasm. (purl.obolibrary.org/obo/SO_0001531)
# File lib/biointerchange/so.rb, line 9445 def self.nuclear_export_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001531') end
A gene from nuclear sequence. (purl.obolibrary.org/obo/SO_0000087)
# File lib/biointerchange/so.rb, line 839 def self.nuclear_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000087') end
A polypeptide region that targets a polypeptide to the nucleus. (purl.obolibrary.org/obo/SO_0001528)
# File lib/biointerchange/so.rb, line 9427 def self.nuclear_localization_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001528') end
An attribute describing a nuclear pseudogene of a mitochndrial gene. (purl.obolibrary.org/obo/SO_0000899)
# File lib/biointerchange/so.rb, line 5675 def self.nuclear_mitochondrial return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000899') end
A nuclear pseudogene of either coding or non-coding mitochondria derived sequence. (purl.obolibrary.org/obo/SO_0001044)
# File lib/biointerchange/so.rb, line 6539 def self.nuclear_mt_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001044') end
A polypeptide region that targets a polypeptide to the nuclear rim. (purl.obolibrary.org/obo/SO_0001534)
# File lib/biointerchange/so.rb, line 9463 def self.nuclear_rim_localization_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001534') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000738)
# File lib/biointerchange/so.rb, line 4751 def self.nuclear_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000738') end
A binding site that, of a nucleotide molecule, that interacts selectively and non-covalently with polypeptide residues of a nuclease. (purl.obolibrary.org/obo/SO_0000059)
# File lib/biointerchange/so.rb, line 671 def self.nuclease_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000059') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000322)
# File lib/biointerchange/so.rb, line 2253 def self.nuclease_hypersensitive_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000322') end
A region of nucleotide sequence targeted by a nuclease enzyme. (purl.obolibrary.org/obo/SO_0000684)
# File lib/biointerchange/so.rb, line 4427 def self.nuclease_sensitive_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000684') end
An attribute describing a sequence consisting of nucleobases bound to repeating units. The forms found in nature are deoxyribonucleic acid (DNA
), where the repeating units are 2-deoxy-D-ribose rings connected to a phosphate backbone, and ribonucleic acid (RNA
), where the repeating units are D-ribose rings connected to a phosphate backbone. (purl.obolibrary.org/obo/SO_0000348)
# File lib/biointerchange/so.rb, line 2409 def self.nucleic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000348') end
A gene from nucleomorph sequence. (purl.obolibrary.org/obo/SO_0000097)
# File lib/biointerchange/so.rb, line 899 def self.nucleomorph_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000097') end
A chromosome originating in a nucleomorph. (purl.obolibrary.org/obo/SO_0000829)
# File lib/biointerchange/so.rb, line 5255 def self.nucleomorphic_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000829') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000739)
# File lib/biointerchange/so.rb, line 4757 def self.nucleomorphic_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000739') end
A binding site that, in the molecule, interacts selectively and non-covalently with nucleotide residues. (purl.obolibrary.org/obo/SO_0001655)
# File lib/biointerchange/so.rb, line 10141 def self.nucleotide_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001655') end
A match against a nucleotide sequence. (purl.obolibrary.org/obo/SO_0000347)
# File lib/biointerchange/so.rb, line 2403 def self.nucleotide_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000347') end
A region of nucleotide sequence corresponding to a known motif. (purl.obolibrary.org/obo/SO_0000714)
# File lib/biointerchange/so.rb, line 4607 def self.nucleotide_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000714') end
A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues. (purl.obolibrary.org/obo/SO_0001654)
# File lib/biointerchange/so.rb, line 10135 def self.nucleotide_to_protein_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001654') end
A sequence element characteristic of some RNA
polymerase II promoters with sequence ATTGCAT that binds Pou-domain transcription factors. (purl.obolibrary.org/obo/SO_0001258)
# File lib/biointerchange/so.rb, line 7813 def self.octamer_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001258') end
A short oligonucleotide sequence, of length on the order of 10’s of bases; either single or double stranded. (purl.obolibrary.org/obo/SO_0000696)
# File lib/biointerchange/so.rb, line 4499 def self.oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000696') end
The string of non-encoded U’s at the 3’ end of a guide RNA
(SO:0000602). (purl.obolibrary.org/obo/SO_0000609)
# File lib/biointerchange/so.rb, line 3977 def self.oligo_U_tail return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000609') end
1_methyl_3_3_amino_3_carboxypropyl_pseudouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001373)
# File lib/biointerchange/so.rb, line 8503 def self.one_methyl_three_three_amino_three_carboxypropyl_pseudouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001373') end
1_methyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001295)
# File lib/biointerchange/so.rb, line 8035 def self.one_methyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001295') end
1_methylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001324)
# File lib/biointerchange/so.rb, line 8209 def self.one_methylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001324') end
1-methylinosine is a modified insosine. (purl.obolibrary.org/obo/SO_0001278)
# File lib/biointerchange/so.rb, line 7933 def self.one_methylinosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001278') end
1_methylpseudouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001347)
# File lib/biointerchange/so.rb, line 8347 def self.one_methylpseudouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001347') end
1,2’-O-dimethyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001314)
# File lib/biointerchange/so.rb, line 8149 def self.one_two_prime_O_dimethyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001314') end
1_2prime_O_dimethylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001340)
# File lib/biointerchange/so.rb, line 8305 def self.one_two_prime_O_dimethylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001340') end
1,2’-O-dimethylinosine is a modified inosine. (purl.obolibrary.org/obo/SO_0001279)
# File lib/biointerchange/so.rb, line 7939 def self.one_two_prime_O_dimethylinosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001279') end
A DNA
sequence that in the normal state of the chromosome corresponds to an unfolded, un-complexed stretch of double-stranded DNA
. (purl.obolibrary.org/obo/SO_0001747)
# File lib/biointerchange/so.rb, line 10693 def self.open_chromatin_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001747') end
A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon. (purl.obolibrary.org/obo/SO_0000057)
# File lib/biointerchange/so.rb, line 655 def self.operator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000057') end
A group of contiguous genes transcribed as a single (polycistronic) mRNA from a single regulatory region. (purl.obolibrary.org/obo/SO_0000178)
# File lib/biointerchange/so.rb, line 1385 def self.operon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000178') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000080)
# File lib/biointerchange/so.rb, line 797 def self.operon_member return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000080') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000736)
# File lib/biointerchange/so.rb, line 4739 def self.organelle_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000736') end
An origin of bacterial chromosome replication. (purl.obolibrary.org/obo/SO_0000953)
# File lib/biointerchange/so.rb, line 5999 def self.oriC return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000953') end
A region of a DNA
molecule where transfer is initiated during the process of conjugation or mobilization. (purl.obolibrary.org/obo/SO_0000724)
# File lib/biointerchange/so.rb, line 4667 def self.oriT return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000724') end
An origin of vegetative replication in plasmids and phages. (purl.obolibrary.org/obo/SO_0000952)
# File lib/biointerchange/so.rb, line 5993 def self.oriV return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000952') end
The origin of replication; starting site for duplication of a nucleic acid molecule to give two identical copies. (purl.obolibrary.org/obo/SO_0000296)
# File lib/biointerchange/so.rb, line 2097 def self.origin_of_replication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000296') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000910)
# File lib/biointerchange/so.rb, line 5741 def self.orphan return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000910') end
A CDS
whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence. (purl.obolibrary.org/obo/SO_1001247)
# File lib/biointerchange/so.rb, line 13469 def self.orphan_CDS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001247') end
An attribute describing a kind of homology where divergence occured after a speciation event. (purl.obolibrary.org/obo/SO_0000858)
# File lib/biointerchange/so.rb, line 5429 def self.orthologous return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000858') end
A homologous_region
that is orthologous to another region. (purl.obolibrary.org/obo/SO_0000855)
# File lib/biointerchange/so.rb, line 5411 def self.orthologous_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000855') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#orthologous_to)
# File lib/biointerchange/so.rb, line 191 def self.orthologous_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#orthologous_to') end
A region of a primary transcript, that is removed via trans splicing. (purl.obolibrary.org/obo/SO_0001475)
# File lib/biointerchange/so.rb, line 9109 def self.outron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001475') end
An attribute describing a gene that has a sequence that overlaps the sequence of another gene. (purl.obolibrary.org/obo/SO_0000068)
# File lib/biointerchange/so.rb, line 725 def self.overlapping return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000068') end
A continous experimental result region extending the length of multiple overlapping EST’s. (purl.obolibrary.org/obo/SO_0001262)
# File lib/biointerchange/so.rb, line 7837 def self.overlapping_EST_set return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001262') end
A continuous region of sequence composed of the overlapping of multiple sequence_features, which ultimately provides evidence for another sequence_feature. (purl.obolibrary.org/obo/SO_0001261)
# File lib/biointerchange/so.rb, line 7831 def self.overlapping_feature_set return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001261') end
X overlaps Y iff there exists some Z such that Z contained_by
X and Z contained_by
Y. (purl.obolibrary.org/obo/so_2_5_2.obo#overlaps)
# File lib/biointerchange/so.rb, line 197 def self.overlaps return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#overlaps') end
A P_element is a DNA
transposon responsible for hybrid dysgenesis. (purl.obolibrary.org/obo/SO_0001535)
# File lib/biointerchange/so.rb, line 9469 def self.p_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001535') end
An assembly region that has been sequenced from both ends resulting in a read_pair
(mate_pair). (purl.obolibrary.org/obo/SO_0001790)
# File lib/biointerchange/so.rb, line 10945 def self.paired_end_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001790') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001519)
# File lib/biointerchange/so.rb, line 9373 def self.paracentric return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001519') end
A chromosomal inversion that does not include the centromere. (purl.obolibrary.org/obo/SO_1000047)
# File lib/biointerchange/so.rb, line 12713 def self.paracentric_inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000047') end
A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (both running N-terminal to C-terminal). This orientation is slightly less stable because it introduces nonplanarity in the inter-strand hydrogen bonding pattern. Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i)and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they do not hydrogen bond to each other; rather, one residue forms hydrogen bonds to the residues that flank the other (but not vice versa). For example, residue i may form hydrogen bonds to residues j - 1 and j + 1; this is known as a wide pair of hydrogen bonds. By contrast, residue j may hydrogen-bond to different residues altogether, or to none at all. The dihedral angles (phi, psi) are about (-120 degrees, 115 degrees) in parallel sheets. (purl.obolibrary.org/obo/SO_0001113)
# File lib/biointerchange/so.rb, line 6949 def self.parallel_beta_strand return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001113') end
An attribute describing a kind of homology where divergence occurred after a duplication event. (purl.obolibrary.org/obo/SO_0000859)
# File lib/biointerchange/so.rb, line 5435 def self.paralogous return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000859') end
A homologous_region
that is paralogous to another region. (purl.obolibrary.org/obo/SO_0000854)
# File lib/biointerchange/so.rb, line 5405 def self.paralogous_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000854') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#paralogous_to)
# File lib/biointerchange/so.rb, line 203 def self.paralogous_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#paralogous_to') end
Either:
Example: amino_acid part_of polypeptide. (http://purl.obolibrary.org/obo/part_of)
Or:
X part_of Y if X is a subregion of Y. (http://purl.obolibrary.org/obo/so_2_5_2.obo#part_of)
# File lib/biointerchange/so.rb, line 11 def self.part_of return [ RDF::URI.new('http://purl.obolibrary.org/obo/part_of'), RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#part_of') ] end
B is partial_evidence_for_feature
A if the extent of B supports part_of
but not all of A. (purl.obolibrary.org/obo/so_2_5_2.obo#partial_evidence_for_feature)
# File lib/biointerchange/so.rb, line 209 def self.partial_evidence_for_feature return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#partial_evidence_for_feature') end
A partial DNA
sequence assembly of a chromosome or full genome, which contains gaps that are filled with N’s. (purl.obolibrary.org/obo/SO_0001876)
# File lib/biointerchange/so.rb, line 11461 def self.partial_genomic_sequence_assembly return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001876') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000175)
# File lib/biointerchange/so.rb, line 13331 def self.partially_characterised_chromosomal_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000175') end
A cDNA invalidated clone by partial processing. (purl.obolibrary.org/obo/SO_0000813)
# File lib/biointerchange/so.rb, line 5171 def self.partially_processed_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000813') end
Uniparental disomy is a sequence_alteration
where a diploid individual receives two copies for all or part of a chromosome from the father and no copies of the same chromosome or region from the mother. (purl.obolibrary.org/obo/SO_0001746)
# File lib/biointerchange/so.rb, line 10687 def self.paternal_uniparental_disomy return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001746') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001776)
# File lib/biointerchange/so.rb, line 10867 def self.paternal_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001776') end
The paternal copy of the gene is modified, rendering it transcriptionally silent. (purl.obolibrary.org/obo/SO_0000136)
# File lib/biointerchange/so.rb, line 1133 def self.paternally_imprinted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000136') end
A gene that is paternally imprinted. (purl.obolibrary.org/obo/SO_0000889)
# File lib/biointerchange/so.rb, line 5615 def self.paternally_imprinted_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000889') end
Mobile genetic elements that contribute to rapid changes in virulence potential. They are present on the genomes of pathogenic strains but absent from the genomes of non pathogenic members of the same or related species. (purl.obolibrary.org/obo/SO_0000773)
# File lib/biointerchange/so.rb, line 4955 def self.pathogenic_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000773') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001779)
# File lib/biointerchange/so.rb, line 10885 def self.pedigree_specific_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001779') end
Irregular, unstructured regions of a protein’s backbone, as distinct from the regular region (namely alpha helix and beta strand - characterised by specific patterns of main-chain hydrogen bonds). (purl.obolibrary.org/obo/SO_0100012)
# File lib/biointerchange/so.rb, line 12419 def self.peptide_coil return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100012') end
A collection of peptide sequences. (purl.obolibrary.org/obo/SO_0001501)
# File lib/biointerchange/so.rb, line 9265 def self.peptide_collection return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001501') end
A helix is a secondary_structure conformation where the peptide backbone forms a coil. (purl.obolibrary.org/obo/SO_0001114)
# File lib/biointerchange/so.rb, line 6955 def self.peptide_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001114') end
A region of peptide sequence used to target the polypeptide molecule to a specific organelle. (purl.obolibrary.org/obo/SO_0001527)
# File lib/biointerchange/so.rb, line 9421 def self.peptide_localization_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001527') end
An attribute describing the nature of a proteinaceous polymer, where by the amino acid units are joined by peptide bonds. (purl.obolibrary.org/obo/SO_0001407)
# File lib/biointerchange/so.rb, line 8707 def self.peptidyl return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001407') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001518)
# File lib/biointerchange/so.rb, line 9367 def self.pericentric return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001518') end
A chromosomal inversion that includes the centromere. (purl.obolibrary.org/obo/SO_1000046)
# File lib/biointerchange/so.rb, line 12707 def self.pericentric_inversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000046') end
Peroxywybutosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001333)
# File lib/biointerchange/so.rb, line 8263 def self.peroxywybutosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001333') end
The nucleotide sequence of a virus that infects bacteria. (purl.obolibrary.org/obo/SO_0001042)
# File lib/biointerchange/so.rb, line 6527 def self.phage_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001042') end
A plasmid which carries within its sequence a bacteriophage replication origin. When the host bacterium is infected with "helper" phage, a phagemid is replicated along with the phage DNA
and packaged into phage capsids. (SO:ma) (purl.obolibrary.org/obo/SO_0000157)
# File lib/biointerchange/so.rb, line 1259 def self.phagemid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000157') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000761)
# File lib/biointerchange/so.rb, line 4889 def self.phagemid_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000761') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001441)
# File lib/biointerchange/so.rb, line 8905 def self.phenylalanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001441') end
A primary transcript encoding phenylalanyl tRNA (SO:0000267). (purl.obolibrary.org/obo/SO_0000224)
# File lib/biointerchange/so.rb, line 1665 def self.phenylalanine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000224') end
A tRNA sequence that has a phenylalanine anticodon, and a 3’ phenylalanine binding region. (purl.obolibrary.org/obo/SO_0000267)
# File lib/biointerchange/so.rb, line 1923 def self.phenylalanyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000267') end
A post-translationally modified region in which residues of the protein are modified by phosphorylation. (purl.obolibrary.org/obo/SO_0001811)
# File lib/biointerchange/so.rb, line 11071 def self.phosphorylation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001811') end
A small non coding RNA
, part of a silencing system that prevents the spreading of selfish genetic elements. (purl.obolibrary.org/obo/SO_0001035)
# File lib/biointerchange/so.rb, line 6485 def self.piRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001035') end
A gene that encodes for an piwi associated RNA
. (purl.obolibrary.org/obo/SO_0001638)
# File lib/biointerchange/so.rb, line 10063 def self.piRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001638') end
The pi helix has 4.1 residues per turn and a translation of 1.15 (=0.115 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid five residues earlier. (purl.obolibrary.org/obo/SO_0001118)
# File lib/biointerchange/so.rb, line 6979 def self.pi_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001118') end
A self replicating, using the hosts cellular machinery, often circular nucleic acid molecule that is distinct from a chromosome in the organism. (purl.obolibrary.org/obo/SO_0000155)
# File lib/biointerchange/so.rb, line 1247 def self.plasmid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000155') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000759)
# File lib/biointerchange/so.rb, line 4877 def self.plasmid_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000759') end
A gene from plasmid sequence. (purl.obolibrary.org/obo/SO_0000098)
# File lib/biointerchange/so.rb, line 905 def self.plasmid_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000098') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000749)
# File lib/biointerchange/so.rb, line 4817 def self.plasmid_location return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000749') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000755)
# File lib/biointerchange/so.rb, line 4853 def self.plasmid_vector return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000755') end
A gene from plastid sequence. (purl.obolibrary.org/obo/SO_0000090)
# File lib/biointerchange/so.rb, line 857 def self.plastid_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000090') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000740)
# File lib/biointerchange/so.rb, line 4763 def self.plastid_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000740') end
A frameshift caused by inserting one base. (purl.obolibrary.org/obo/SO_0000868)
# File lib/biointerchange/so.rb, line 5489 def self.plus_1_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000868') end
A sequence variant which causes a disruption of the translational reading frame, by shifting one base backward. (purl.obolibrary.org/obo/SO_0001594)
# File lib/biointerchange/so.rb, line 9805 def self.plus_1_frameshift_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001594') end
The region of mRNA 1 base long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. (purl.obolibrary.org/obo/SO_0001211)
# File lib/biointerchange/so.rb, line 7537 def self.plus_1_translational_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001211') end
An attribute describing a translational frameshift of +1. (purl.obolibrary.org/obo/SO_1001263)
# File lib/biointerchange/so.rb, line 13523 def self.plus_1_translationally_frameshifted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001263') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001595)
# File lib/biointerchange/so.rb, line 9811 def self.plus_2_frameshift_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001595') end
A frameshift caused by inserting two bases. (purl.obolibrary.org/obo/SO_0000869)
# File lib/biointerchange/so.rb, line 5495 def self.plus_2_framshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000869') end
The region of mRNA 2 bases long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. (purl.obolibrary.org/obo/SO_0001212)
# File lib/biointerchange/so.rb, line 7543 def self.plus_2_translational_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001212') end
A point centromere is a relatively small centromere (about 125 bp DNA
) in discrete sequence, found in some yeast including S. cerevisiae. (purl.obolibrary.org/obo/SO_0001794)
# File lib/biointerchange/so.rb, line 10969 def self.point_centromere return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001794') end
A single nucleotide change which has occurred at the same position of a corresponding nucleotide in a reference sequence. (purl.obolibrary.org/obo/SO_1000008)
# File lib/biointerchange/so.rb, line 12491 def self.point_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000008') end
A kind of DNA
transposon that populates the genomes of protists, fungi, and animals, characterized by a unique set of proteins necessary for their transposition, including a protein-primed DNA
polymerase B, retroviral integrase, cysteine protease, and ATPase. Polintons are characterized by 6-bp target site duplications, terminal-inverted repeats that are several hundred nucleotides long, and 5’-AG and TC-3’ termini. Polintons exist as autonomous and nonautonomous elements. (purl.obolibrary.org/obo/SO_0001170)
# File lib/biointerchange/so.rb, line 7291 def self.polinton return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001170') end
A cDNA clone invalidated by polyA priming. (purl.obolibrary.org/obo/SO_0000812)
# File lib/biointerchange/so.rb, line 5165 def self.polyA_primed_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000812') end
Sequence of about 100 nucleotides of A added to the 3’ end of most eukaryotic mRNAs. (purl.obolibrary.org/obo/SO_0000610)
# File lib/biointerchange/so.rb, line 3983 def self.polyA_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000610') end
The recognition sequence necessary for endonuclease cleavage of an RNA
transcript that is followed by polyadenylation; consensus=AATAAA. (purl.obolibrary.org/obo/SO_0000551)
# File lib/biointerchange/so.rb, line 3625 def self.polyA_signal_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000551') end
The site on an RNA
transcript to which will be added adenine residues by post-transcriptional polyadenylation. The boundary between the UTR
and the polyA sequence. (purl.obolibrary.org/obo/SO_0000553)
# File lib/biointerchange/so.rb, line 3637 def self.polyA_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000553') end
A attribute describing the addition of a poly A tail to the 3’ end of a mRNA molecule. (purl.obolibrary.org/obo/SO_0000246)
# File lib/biointerchange/so.rb, line 1797 def self.polyadenylated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000246') end
An mRNA that is polyadenylated. (purl.obolibrary.org/obo/SO_0000871)
# File lib/biointerchange/so.rb, line 5507 def self.polyadenylated_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000871') end
A sequence variant that changes polyadenylation with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001545)
# File lib/biointerchange/so.rb, line 9529 def self.polyadenylation_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001545') end
An attribute describing a sequence that contains the code for more than one gene product. (purl.obolibrary.org/obo/SO_0000880)
# File lib/biointerchange/so.rb, line 5561 def self.polycistronic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000880') end
A gene that is polycistronic. (purl.obolibrary.org/obo/SO_0000477)
# File lib/biointerchange/so.rb, line 3181 def self.polycistronic_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000477') end
An mRNA that encodes multiple proteins from at least two non-overlapping regions. (purl.obolibrary.org/obo/SO_0000634)
# File lib/biointerchange/so.rb, line 4127 def self.polycistronic_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000634') end
A primary transcript encoding for more than one gene product. (purl.obolibrary.org/obo/SO_0000631)
# File lib/biointerchange/so.rb, line 4109 def self.polycistronic_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000631') end
A transcript that is polycistronic. (purl.obolibrary.org/obo/SO_0000078)
# File lib/biointerchange/so.rb, line 785 def self.polycistronic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000078') end
An attribute to describe the kind of biological sequence. (purl.obolibrary.org/obo/SO_0000443)
# File lib/biointerchange/so.rb, line 2977 def self.polymer_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000443') end
A read produced by the polymerase based sequence by synthesis method. (purl.obolibrary.org/obo/SO_0001426)
# File lib/biointerchange/so.rb, line 8821 def self.polymerase_synthesis_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001426') end
Pseudogene owing to a SNP/DIP but in other individuals/haplotypes/strains the gene is translated. (purl.obolibrary.org/obo/SO_0001841)
# File lib/biointerchange/so.rb, line 11251 def self.polymorphic_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001841') end
A sequence variant that is segregating in one or more natural populations of a species. (purl.obolibrary.org/obo/SO_0001025)
# File lib/biointerchange/so.rb, line 6425 def self.polymorphic_sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001025') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001766)
# File lib/biointerchange/so.rb, line 10807 def self.polymorphic_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001766') end
A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation. (purl.obolibrary.org/obo/SO_0000104)
# File lib/biointerchange/so.rb, line 941 def self.polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000104') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with DNA
. (purl.obolibrary.org/obo/SO_0100020)
# File lib/biointerchange/so.rb, line 12467 def self.polypeptide_DNA_contact return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100020') end
A polypeptide binding motif is a short (up to 20 amino acids) polypeptide region of biological interest that contains one or more amino acids experimentally shown to bind to a ligand. (purl.obolibrary.org/obo/SO_0100018)
# File lib/biointerchange/so.rb, line 12455 def self.polypeptide_binding_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100018') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with calcium ions. (purl.obolibrary.org/obo/SO_0001094)
# File lib/biointerchange/so.rb, line 6835 def self.polypeptide_calcium_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001094') end
A polypeptide catalytic motif is a short (up to 20 amino acids) polypeptide region that contains one or more active site residues. (purl.obolibrary.org/obo/SO_0100019)
# File lib/biointerchange/so.rb, line 12461 def self.polypeptide_catalytic_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100019') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with cobalt ions. (purl.obolibrary.org/obo/SO_0001095)
# File lib/biointerchange/so.rb, line 6841 def self.polypeptide_cobalt_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001095') end
A conserved motif is a short (up to 20 amino acids) region of biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found. (purl.obolibrary.org/obo/SO_0100017)
# File lib/biointerchange/so.rb, line 12449 def self.polypeptide_conserved_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100017') end
A subsection of sequence with biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found. (purl.obolibrary.org/obo/SO_0100021)
# File lib/biointerchange/so.rb, line 12473 def self.polypeptide_conserved_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0100021') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with copper ions. (purl.obolibrary.org/obo/SO_0001096)
# File lib/biointerchange/so.rb, line 6847 def self.polypeptide_copper_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001096') end
A structurally or functionally defined protein region. In proteins with multiple domains, the combination of the domains determines the function of the protein. A region which has been shown to recur throughout evolution. (purl.obolibrary.org/obo/SO_0000417)
# File lib/biointerchange/so.rb, line 2817 def self.polypeptide_domain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000417') end
A sequence variant which changes polypeptide functioning with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001554)
# File lib/biointerchange/so.rb, line 9583 def self.polypeptide_function_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001554') end
A sequence variant that causes a fusion of two polypeptide sequences. (purl.obolibrary.org/obo/SO_0001616)
# File lib/biointerchange/so.rb, line 9937 def self.polypeptide_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001616') end
A sequence variant which causes gain of polypeptide function with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001557)
# File lib/biointerchange/so.rb, line 9601 def self.polypeptide_gain_of_function_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001557') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with iron ions. (purl.obolibrary.org/obo/SO_0001097)
# File lib/biointerchange/so.rb, line 6853 def self.polypeptide_iron_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001097') end
Residues which interact with a ligand. (purl.obolibrary.org/obo/SO_0001105)
# File lib/biointerchange/so.rb, line 6901 def self.polypeptide_ligand_contact return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001105') end
A sequence variant which changes the localization of a polypeptide with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001558)
# File lib/biointerchange/so.rb, line 9607 def self.polypeptide_localization_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001558') end
A sequence variant that causes the loss of a polypeptide function with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001559)
# File lib/biointerchange/so.rb, line 9613 def self.polypeptide_loss_of_function_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001559') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with magnesium ions. (purl.obolibrary.org/obo/SO_0001098)
# File lib/biointerchange/so.rb, line 6859 def self.polypeptide_magnesium_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001098') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with manganese ions. (purl.obolibrary.org/obo/SO_0001099)
# File lib/biointerchange/so.rb, line 6865 def self.polypeptide_manganese_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001099') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with metal ions. (purl.obolibrary.org/obo/SO_0001092)
# File lib/biointerchange/so.rb, line 6823 def self.polypeptide_metal_contact return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001092') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with molybdenum ions. (purl.obolibrary.org/obo/SO_0001100)
# File lib/biointerchange/so.rb, line 6871 def self.polypeptide_molybdenum_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001100') end
A sequence motif is a short (up to 20 amino acids) region of biological interest. Such motifs, although they are too short to constitute functional domains, share sequence similarities and are conserved in different proteins. They display a common function (protein-binding, subcellular location etc.). (purl.obolibrary.org/obo/SO_0001067)
# File lib/biointerchange/so.rb, line 6679 def self.polypeptide_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001067') end
A motif of two consecutive residues with dihedral angles: Residue(i): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001121)
# File lib/biointerchange/so.rb, line 6997 def self.polypeptide_nest_left_right_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001121') end
A motif of two consecutive residues with dihedral angles. Nest should not have Proline as any residue. Nests frequently occur as parts of other motifs such as Schellman loops. (purl.obolibrary.org/obo/SO_0001120)
# File lib/biointerchange/so.rb, line 6991 def self.polypeptide_nest_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001120') end
A motif of two consecutive residues with dihedral angles: Residue(i): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001122)
# File lib/biointerchange/so.rb, line 7003 def self.polypeptide_nest_right_left_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001122') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with nickel ions. (purl.obolibrary.org/obo/SO_0001101)
# File lib/biointerchange/so.rb, line 6877 def self.polypeptide_nickel_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001101') end
A sequence variant that causes some but not all loss of polypeptide function with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001561)
# File lib/biointerchange/so.rb, line 9625 def self.polypeptide_partial_loss_of_function return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001561') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000123)
# File lib/biointerchange/so.rb, line 13121 def self.polypeptide_post_translational_processing_affected return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000123') end
A sequence variant that causes a change in post translational processing of the peptide with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001562)
# File lib/biointerchange/so.rb, line 9631 def self.polypeptide_post_translational_processing_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001562') end
Biological sequence region that can be assigned to a specific subsequence of a polypeptide. (purl.obolibrary.org/obo/SO_0000839)
# File lib/biointerchange/so.rb, line 5315 def self.polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000839') end
A polypeptide_repeat
is a single copy of an internal sequence repetition. (purl.obolibrary.org/obo/SO_0001068)
# File lib/biointerchange/so.rb, line 6685 def self.polypeptide_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001068') end
A region of peptide with secondary structure has hydrogen bonding along the peptide chain that causes a defined conformation of the chain. (purl.obolibrary.org/obo/SO_0001078)
# File lib/biointerchange/so.rb, line 6739 def self.polypeptide_secondary_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001078') end
A sequence variant with in the CDS
that causes a change in the resulting polypeptide sequence. (purl.obolibrary.org/obo/SO_0001603)
# File lib/biointerchange/so.rb, line 9859 def self.polypeptide_sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001603') end
Incompatibility in the sequence due to some experimental problem. (purl.obolibrary.org/obo/SO_0001082)
# File lib/biointerchange/so.rb, line 6763 def self.polypeptide_sequencing_information return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001082') end
Motif is a three-dimensional structural element within the chain, which appears also in a variety of other molecules. Unlike a domain, a motif does not need to form a stable globular unit. (purl.obolibrary.org/obo/SO_0001079)
# File lib/biointerchange/so.rb, line 6745 def self.polypeptide_structural_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001079') end
Region of polypeptide with a given structural property. (purl.obolibrary.org/obo/SO_0001070)
# File lib/biointerchange/so.rb, line 6691 def self.polypeptide_structural_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001070') end
A sequence variant of the CD that causes a truncation of the resulting polypeptide. (purl.obolibrary.org/obo/SO_0001617)
# File lib/biointerchange/so.rb, line 9943 def self.polypeptide_truncation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001617') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with tungsten ions. (purl.obolibrary.org/obo/SO_0001102)
# File lib/biointerchange/so.rb, line 6883 def self.polypeptide_tungsten_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001102') end
A reversal in the direction of the backbone of a protein that is stabilized by hydrogen bond between backbone NH and CO groups, involving no more than 4 amino acid residues. (purl.obolibrary.org/obo/SO_0001128)
# File lib/biointerchange/so.rb, line 7039 def self.polypeptide_turn_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001128') end
A site of sequence variation (alteration). Alternative sequence due to naturally occuring events such as polymorphisms and altermatve splicing or experimental methods such as site directed mutagenesis. (purl.obolibrary.org/obo/SO_0001146)
# File lib/biointerchange/so.rb, line 7147 def self.polypeptide_variation_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001146') end
A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with zinc ions. (purl.obolibrary.org/obo/SO_0001103)
# File lib/biointerchange/so.rb, line 6889 def self.polypeptide_zinc_ion_contact_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001103') end
A kind of chromosome variation where the chromosome complement is an exact multiple of the haploid number and is greater than the diploid number. (purl.obolibrary.org/obo/SO_0001254)
# File lib/biointerchange/so.rb, line 7789 def self.polyploid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001254') end
The polypyrimidine tract is one of the cis-acting sequence elements directing intron removal in pre-mRNA splicing. (purl.obolibrary.org/obo/SO_0000612)
# File lib/biointerchange/so.rb, line 3995 def self.polypyrimidine_tract return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000612') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001780)
# File lib/biointerchange/so.rb, line 10891 def self.population_specific_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001780') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#position_of)
# File lib/biointerchange/so.rb, line 215 def self.position_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#position_of') end
A candidate gene whose association with a trait is based on the gene’s location on a chromosome. (purl.obolibrary.org/obo/SO_0001868)
# File lib/biointerchange/so.rb, line 11413 def self.positional_candidate_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001868') end
The gene product is involved in its own transcriptional regulation, where it increases transcription. (purl.obolibrary.org/obo/SO_0000475)
# File lib/biointerchange/so.rb, line 3169 def self.positively_autoregulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000475') end
A gene that is positively autoregulated. (purl.obolibrary.org/obo/SO_0000892)
# File lib/biointerchange/so.rb, line 5633 def self.positively_autoregulated_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000892') end
A region of sequence where there may have been an error in the assembly. (purl.obolibrary.org/obo/SO_0000702)
# File lib/biointerchange/so.rb, line 4535 def self.possible_assembly_error return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000702') end
A region of sequence where the validity of the base calling is questionable. (purl.obolibrary.org/obo/SO_0000701)
# File lib/biointerchange/so.rb, line 4529 def self.possible_base_call_error return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000701') end
A region where a transformation occurs in a protein after it has been synthesized. This which may regulate, stabilize, crosslink or introduce new chemical functionalities in the protein. (purl.obolibrary.org/obo/SO_0001089)
# File lib/biointerchange/so.rb, line 6805 def self.post_translationally_modified_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001089') end
An attribute describing a gene that is regulated after it has been translated. (purl.obolibrary.org/obo/SO_0000130)
# File lib/biointerchange/so.rb, line 1097 def self.post_translationally_regulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000130') end
An attribute describing a gene sequence where the resulting protein is modified to regulate it. (purl.obolibrary.org/obo/SO_0000469)
# File lib/biointerchange/so.rb, line 3133 def self.post_translationally_regulated_by_protein_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000469') end
An attribute describing a gene sequence where the resulting protein is regulated by the stability of the resulting protein. (purl.obolibrary.org/obo/SO_0000467)
# File lib/biointerchange/so.rb, line 3121 def self.post_translationally_regulated_by_protein_stability return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000467') end
A gene that is post translationally regulated. (purl.obolibrary.org/obo/SO_0000890)
# File lib/biointerchange/so.rb, line 5621 def self.post_translationally_regulated_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000890') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000932)
# File lib/biointerchange/so.rb, line 5873 def self.pre_edited_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000932') end
The region of a transcript that will be edited. (purl.obolibrary.org/obo/SO_0000583)
# File lib/biointerchange/so.rb, line 3821 def self.pre_edited_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000583') end
The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin sructure. (purl.obolibrary.org/obo/SO_0001244)
# File lib/biointerchange/so.rb, line 7729 def self.pre_miRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001244') end
An attribute describing an unverified region. (purl.obolibrary.org/obo/SO_0000732)
# File lib/biointerchange/so.rb, line 4715 def self.predicted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000732') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000310)
# File lib/biointerchange/so.rb, line 2181 def self.predicted_ab_initio_computation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000310') end
An attribute describing a feature that is predicted by a computer program that did not rely on sequence similarity. (purl.obolibrary.org/obo/SO_0000911)
# File lib/biointerchange/so.rb, line 5747 def self.predicted_by_ab_initio_computation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000911') end
This term is mapped to MGED. Do not obsolete without consulting MGED ontology. (purl.obolibrary.org/obo/SO_0000996)
# File lib/biointerchange/so.rb, line 6251 def self.predicted_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000996') end
A transcript that in its initial state requires modification to be functional. (purl.obolibrary.org/obo/SO_0000185)
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000144)
# File lib/biointerchange/so.rb, line 1181 def self.primary_transcript_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000144') end
A part of a primary transcript. (purl.obolibrary.org/obo/SO_0000835)
# File lib/biointerchange/so.rb, line 5291 def self.primary_transcript_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000835') end
An oligo to which new deoxyribonucleotides can be added by DNA
polymerase. (purl.obolibrary.org/obo/SO_0000112)
# File lib/biointerchange/so.rb, line 989 def self.primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000112') end
Non-covalent primer binding site for initiation of replication, transcription, or reverse transcription. (purl.obolibrary.org/obo/SO_0005850)
# File lib/biointerchange/so.rb, line 12299 def self.primer_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005850') end
A nucleotide match to a primer sequence. (purl.obolibrary.org/obo/SO_0001472)
# File lib/biointerchange/so.rb, line 9091 def self.primer_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001472') end
A DNA
sequence used experimentally to detect the presence or absence of a complementary nucleic acid. (purl.obolibrary.org/obo/SO_0000051)
# File lib/biointerchange/so.rb, line 615 def self.probe return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000051') end
An attribute describing a pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promotors, but often including a polyA tail. (purl.obolibrary.org/obo/SO_0000900)
# File lib/biointerchange/so.rb, line 5681 def self.processed return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000900') end
Inverse of processed_into. (purl.obolibrary.org/obo/so_2_5_2.obo#processed_from)
# File lib/biointerchange/so.rb, line 221 def self.processed_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#processed_from') end
X is processed_into
Y if a region X is modified to create Y. (purl.obolibrary.org/obo/so_2_5_2.obo#processed_into)
# File lib/biointerchange/so.rb, line 227 def self.processed_into return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#processed_into') end
A pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promoters, but often including a polyA tail. (purl.obolibrary.org/obo/SO_0000043)
# File lib/biointerchange/so.rb, line 567 def self.processed_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000043') end
A transcript for which no open reading frame has been identified and for which no other function has been determined. (purl.obolibrary.org/obo/SO_0001503)
# File lib/biointerchange/so.rb, line 9277 def self.processed_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001503') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000082)
# File lib/biointerchange/so.rb, line 809 def self.processed_transcript_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000082') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001439)
# File lib/biointerchange/so.rb, line 8893 def self.proline return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001439') end
A primary transcript encoding prolyl tRNA (SO:0000268). (purl.obolibrary.org/obo/SO_0000225)
# File lib/biointerchange/so.rb, line 1671 def self.proline_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000225') end
A tRNA sequence that has a proline anticodon, and a 3’ proline binding region. (purl.obolibrary.org/obo/SO_0000268)
# File lib/biointerchange/so.rb, line 1929 def self.prolyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000268') end
A regulatory_region
composed of the TSS(s) and binding sites for TF_complexes of the basal transcription machinery. (purl.obolibrary.org/obo/SO_0000167)
# File lib/biointerchange/so.rb, line 1319 def self.promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000167') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001659)
# File lib/biointerchange/so.rb, line 10165 def self.promoter_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001659') end
A region immediately adjacent to a promoter which may or may not contain transcription factor binding sites. (purl.obolibrary.org/obo/SO_0001952)
# File lib/biointerchange/so.rb, line 11917 def self.promoter_flanking_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001952') end
A region of sequence which is part of a promoter. (purl.obolibrary.org/obo/SO_0000832)
# File lib/biointerchange/so.rb, line 5273 def self.promoter_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000832') end
A transcriptional_cis_regulatory_region
that restricts the activity of a CRM
to a single promoter and which functions only when both itself and an insulator are located between the CRM
and the promoter. (purl.obolibrary.org/obo/SO_0001058)
# File lib/biointerchange/so.rb, line 6631 def self.promoter_targeting_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001058') end
A promoter trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when inserted in close proximity to a promoter element. Promoter traps typically do not contain promoter elements and are mutagenic. (purl.obolibrary.org/obo/SO_0001478)
# File lib/biointerchange/so.rb, line 9127 def self.promoter_trap_construct return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001478') end
Part of a peptide chain which is cleaved off during the formation of the mature protein. (purl.obolibrary.org/obo/SO_0001062)
# File lib/biointerchange/so.rb, line 6655 def self.propeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001062') end
The propeptide_cleavage_site
is the arginine/lysine boundary on a propeptide where cleavage occurs. (purl.obolibrary.org/obo/SO_0001061)
# File lib/biointerchange/so.rb, line 6649 def self.propeptide_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001061') end
A phage genome after it has established in the host genome in a latent/immune state either as a plasmid or as an integrated "island". (GOC:jl) (purl.obolibrary.org/obo/SO_0001006)
# File lib/biointerchange/so.rb, line 6311 def self.prophage return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001006') end
A gene from proplastid sequence. (purl.obolibrary.org/obo/SO_0000096)
# File lib/biointerchange/so.rb, line 893 def self.proplastid_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000096') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000748)
# File lib/biointerchange/so.rb, line 4811 def self.proplastid_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000748') end
A polypeptide_region
that codes for a protease cleavage site. (purl.obolibrary.org/obo/SO_0001956)
# File lib/biointerchange/so.rb, line 11941 def self.protease_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001956') end
A sequence_variant
which is predicted to change the protein encoded in the coding sequence. (purl.obolibrary.org/obo/SO_0001818)
# File lib/biointerchange/so.rb, line 11113 def self.protein_altering_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001818') end
A binding site that, in the molecule, interacts selectively and non-covalently with polypeptide molecules. (purl.obolibrary.org/obo/SO_0000410)
# File lib/biointerchange/so.rb, line 2775 def self.protein_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000410') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000010)
# File lib/biointerchange/so.rb, line 375 def self.protein_coding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000010') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001217)
# File lib/biointerchange/so.rb, line 7573 def self.protein_coding_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001217') end
A primary transcript that, at least in part, encodes one or more proteins. (purl.obolibrary.org/obo/SO_0000120)
# File lib/biointerchange/so.rb, line 1037 def self.protein_coding_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000120') end
A match to a protein HMM such as pfam. (purl.obolibrary.org/obo/SO_0001831)
# File lib/biointerchange/so.rb, line 11191 def self.protein_hmm_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001831') end
A match against a protein sequence. (purl.obolibrary.org/obo/SO_0000349)
# File lib/biointerchange/so.rb, line 2415 def self.protein_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000349') end
A binding site that, in the protein molecule, interacts selectively and non-covalently with polypeptide residues. (purl.obolibrary.org/obo/SO_0001093)
# File lib/biointerchange/so.rb, line 6829 def self.protein_protein_contact return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001093') end
A polypeptide region that proves structure in a protein that affects the stability of the protein. (purl.obolibrary.org/obo/SO_0001955)
# File lib/biointerchange/so.rb, line 11935 def self.protein_stability_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001955') end
DNA
segment that ranges from about -250 to -40 relative to +1 of RNA
transcription start site, where sequence specific DNA-binding transcription factors binds, such as Sp1, CTF (CCAAT-binding transcription factor), and CBF (CCAAT-box binding factor). (purl.obolibrary.org/obo/SO_0001668)
# File lib/biointerchange/so.rb, line 10219 def self.proximal_promoter_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001668') end
A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their "normal" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its "normal" paralog). (www.ucl.ac.uk/~ucbhjow/b241/glossary.html) (purl.obolibrary.org/obo/SO_0000336)
# File lib/biointerchange/so.rb, line 2337 def self.pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000336') end
An attribute of a pseudogene (SO:0000336). (purl.obolibrary.org/obo/SO_0000042)
# File lib/biointerchange/so.rb, line 561 def self.pseudogene_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000042') end
A pseudogene caused by unequal crossing over at recombination. (purl.obolibrary.org/obo/SO_0000044)
# File lib/biointerchange/so.rb, line 573 def self.pseudogene_by_unequal_crossing_over return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000044') end
A non functional descendant of an exon, part of a pseudogene. (purl.obolibrary.org/obo/SO_0000507)
# File lib/biointerchange/so.rb, line 3361 def self.pseudogenic_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000507') end
A gene segment which when incorporated by somatic recombination in the final gene transcript results in a nonfunctional product. (purl.obolibrary.org/obo/SO_0001741)
# File lib/biointerchange/so.rb, line 10657 def self.pseudogenic_gene_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001741') end
A non functional descendent of an rRNA. (purl.obolibrary.org/obo/SO_0000777)
# File lib/biointerchange/so.rb, line 4979 def self.pseudogenic_rRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000777') end
A non-functional descendent of a functional entity. (purl.obolibrary.org/obo/SO_0000462)
# File lib/biointerchange/so.rb, line 3091 def self.pseudogenic_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000462') end
A non functional descendent of a tRNA. (purl.obolibrary.org/obo/SO_0000778)
# File lib/biointerchange/so.rb, line 4985 def self.pseudogenic_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000778') end
A non functional descendant of a transcript, part of a pseudogene. (purl.obolibrary.org/obo/SO_0000516)
# File lib/biointerchange/so.rb, line 3415 def self.pseudogenic_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000516') end
A tertiary structure in RNA
where nucleotides in a loop form base pairs with a region of RNA
downstream of the loop. (purl.obolibrary.org/obo/SO_0000591)
# File lib/biointerchange/so.rb, line 3869 def self.pseudoknot return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000591') end
A modified RNA
base in which the 5- position of the uracil is bound to the ribose ring instead of the 4- position. (purl.obolibrary.org/obo/SO_0001229)
# File lib/biointerchange/so.rb, line 7645 def self.pseudouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001229') end
A snoRNA that specifies the site of pseudouridylation in an RNA
molecule by base pairing with a short sequence around the target residue. (purl.obolibrary.org/obo/SO_0001187)
# File lib/biointerchange/so.rb, line 7393 def self.pseudouridylation_guide_snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001187') end
Change of a purine nucleotide, A or G , into a pyrimidine nucleotide C or T. (purl.obolibrary.org/obo/SO_1000023)
# File lib/biointerchange/so.rb, line 12581 def self.purine_to_pyrimidine_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000023') end
A substitution of a purine, A or G, for another purine. (purl.obolibrary.org/obo/SO_1000014)
# File lib/biointerchange/so.rb, line 12527 def self.purine_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000014') end
Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G. (purl.obolibrary.org/obo/SO_1000018)
# File lib/biointerchange/so.rb, line 12551 def self.pyrimidine_to_purine_transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000018') end
A substitution of a pyrimidine, C or T, for another pyrimidine. (purl.obolibrary.org/obo/SO_1000010)
# File lib/biointerchange/so.rb, line 12503 def self.pyrimidine_transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000010') end
A read produced by pyrosequencing technology. (purl.obolibrary.org/obo/SO_0001424)
# File lib/biointerchange/so.rb, line 8809 def self.pyrosequenced_read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001424') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001456)
# File lib/biointerchange/so.rb, line 8995 def self.pyrrolysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001456') end
A primary transcript encoding pyrrolysyl tRNA (SO:0000766). (purl.obolibrary.org/obo/SO_0001178)
# File lib/biointerchange/so.rb, line 7339 def self.pyrrolysine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001178') end
A tRNA sequence that has a pyrrolysine anticodon, and a 3’ pyrrolysine binding region. (purl.obolibrary.org/obo/SO_0000766)
# File lib/biointerchange/so.rb, line 4919 def self.pyrrolysyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000766') end
An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score. (purl.obolibrary.org/obo/SO_0001686)
# File lib/biointerchange/so.rb, line 10327 def self.quality_value return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001686') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001774)
# File lib/biointerchange/so.rb, line 10855 def self.quantitative_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001774') end
Queuosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001317)
# File lib/biointerchange/so.rb, line 8167 def self.queuosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001317') end
A DNA
motif that contains a core consensus sequence AGGTAAGGGTAATGCAC, is found in the intergenic regions of rDNA repeats, and is bound by an RNA
polymerase I transcription termination factor (e.g. S. pombe Reb1). (purl.obolibrary.org/obo/SO_0001860)
# File lib/biointerchange/so.rb, line 11365 def self.rDNA_intergenic_spacer_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001860') end
A DNA
motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing. (purl.obolibrary.org/obo/SO_0001914)
# File lib/biointerchange/so.rb, line 11689 def self.rDNA_replication_fork_barrier return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001914') end
RNA
that comprises part of a ribosome, and that can provide both structural scaffolding and catalytic activity. (purl.obolibrary.org/obo/SO_0000252)
# File lib/biointerchange/so.rb, line 1833 def self.rRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000252') end
A large polynucleotide in Bacteria and Archaea, which functions as the small subunit of the ribosome. (purl.obolibrary.org/obo/SO_0001000)
# File lib/biointerchange/so.rb, line 6275 def self.rRNA_16S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001000') end
A large polynucleotide in eukaryotes, which functions as the small subunit of the ribosome. (purl.obolibrary.org/obo/SO_0000407)
# File lib/biointerchange/so.rb, line 2757 def self.rRNA_18S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000407') end
A component of the large ribosomal subunit in mitochondrial rRNA. (purl.obolibrary.org/obo/SO_0001171)
# File lib/biointerchange/so.rb, line 7297 def self.rRNA_21S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001171') end
A large polynucleotide in Bacteria and Archaea, which functions as the large subunit of the ribosome. (purl.obolibrary.org/obo/SO_0001001)
# File lib/biointerchange/so.rb, line 6281 def self.rRNA_23S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001001') end
A large polynucleotide which functions as part of the large subunit of the ribosome in some eukaryotes. (purl.obolibrary.org/obo/SO_0001002)
# File lib/biointerchange/so.rb, line 6287 def self.rRNA_25S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001002') end
A component of the large ribosomal subunit. (purl.obolibrary.org/obo/SO_0000653)
# File lib/biointerchange/so.rb, line 4241 def self.rRNA_28S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000653') end
5S ribosomal RNA
(5S rRNA) is a component of the large ribosomal subunit in both prokaryotes and eukaryotes. In eukaryotes, it is synthesised by RNA
polymerase III (the other eukaryotic rRNAs are cleaved from a 45S precursor synthesised by RNA
polymerase I). In Xenopus oocytes, it has been shown that fingers 4-7 of the nine-zinc finger transcription factor TFIIIA can bind to the central region of 5S RNA
. Thus, in addition to positively regulating 5S rRNA transcription, TFIIIA also stabilizes 5S rRNA until it is required for transcription. (purl.obolibrary.org/obo/SO_0000652)
# File lib/biointerchange/so.rb, line 4235 def self.rRNA_5S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000652') end
5_8S ribosomal RNA
(5. 8S rRNA) is a component of the large subunit of the eukaryotic ribosome. It is transcribed by RNA
polymerase I as part of the 45S precursor that also contains 18S and 28S rRNA. Functionally, it is thought that 5.8S rRNA may be involved in ribosome translocation. It is also known to form covalent linkage to the p53 tumour suppressor protein. 5_8S rRNA is also found in archaea. (purl.obolibrary.org/obo/SO_0000375)
# File lib/biointerchange/so.rb, line 2565 def self.rRNA_5_8S return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000375') end
An ncRNA that is part of a ribonucleoprotein that cleaves the primary pre-rRNA transcript in the process of producing mature rRNA molecules. (purl.obolibrary.org/obo/SO_0005843)
# File lib/biointerchange/so.rb, line 12269 def self.rRNA_cleavage_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005843') end
A primary transcript encoding an rRNA cleavage snoRNA. (purl.obolibrary.org/obo/SO_0000582)
# File lib/biointerchange/so.rb, line 3815 def self.rRNA_cleavage_snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000582') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000573)
# File lib/biointerchange/so.rb, line 3761 def self.rRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000573') end
A gene that encodes for ribosomal RNA
. (purl.obolibrary.org/obo/SO_0001637)
# File lib/biointerchange/so.rb, line 10057 def self.rRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001637') end
A primary transcript encoding a large ribosomal subunit RNA
. (purl.obolibrary.org/obo/SO_0000325)
# File lib/biointerchange/so.rb, line 2271 def self.rRNA_large_subunit_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000325') end
A primary transcript encoding a ribosomal RNA
. (purl.obolibrary.org/obo/SO_0000209)
# File lib/biointerchange/so.rb, line 1575 def self.rRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000209') end
A region of an rRNA primary transcript. (purl.obolibrary.org/obo/SO_0000838)
# File lib/biointerchange/so.rb, line 5309 def self.rRNA_primary_transcript_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000838') end
A primary transcript encoding a small ribosomal subunit RNA
. (purl.obolibrary.org/obo/SO_0000255)
# File lib/biointerchange/so.rb, line 1851 def self.rRNA_small_subunit_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000255') end
A sequence of nucleotides or amino acids which, by design, has a "random" order of components, given a predetermined input frequency of these components. (SO:ma) (purl.obolibrary.org/obo/SO_0000449)
# File lib/biointerchange/so.rb, line 3013 def self.random_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000449') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001765)
# File lib/biointerchange/so.rb, line 10801 def self.rare_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001765') end
A 17-28-nt, small interfering RNA
derived from transcripts of repetitive elements. (purl.obolibrary.org/obo/SO_0000454)
# File lib/biointerchange/so.rb, line 3043 def self.rasiRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000454') end
A sequence variant that changes the rate of transcription with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001550)
# File lib/biointerchange/so.rb, line 9559 def self.rate_of_transcription_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001550') end
A sequence obtained from a single sequencing experiment. Typically a read is produced when a base calling program interprets information from a chromatogram trace file produced from a sequencing machine. (purl.obolibrary.org/obo/SO_0000150)
# File lib/biointerchange/so.rb, line 1217 def self.read return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000150') end
One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert. (purl.obolibrary.org/obo/SO_0000007)
# File lib/biointerchange/so.rb, line 357 def self.read_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000007') end
A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It need not contain the start or stop codon. (purl.obolibrary.org/obo/SO_0000717)
# File lib/biointerchange/so.rb, line 4625 def self.reading_frame return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000717') end
A sequence used in experiment. (purl.obolibrary.org/obo/SO_0000695)
# File lib/biointerchange/so.rb, line 4493 def self.reagent return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000695') end
Added jan 2006 by KE. (purl.obolibrary.org/obo/SO_0000786)
# File lib/biointerchange/so.rb, line 5033 def self.reagent_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000786') end
An attribute to describe the sequence of a feature, where the DNA
is rearranged. (purl.obolibrary.org/obo/SO_0000904)
# File lib/biointerchange/so.rb, line 5705 def self.rearranged_at_DNA_level return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000904') end
A region of a chromosome, where the chromosome has undergone a large structural rearrangement that altered the genome organization. There is no longer synteny to the reference genome. (purl.obolibrary.org/obo/SO_0001872)
# File lib/biointerchange/so.rb, line 11437 def self.rearrangement_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001872') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001521)
# File lib/biointerchange/so.rb, line 9385 def self.reciprocal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001521') end
A chromosomal translocation with two breaks; two chromosome segments have simply been exchanged. (purl.obolibrary.org/obo/SO_1000048)
# File lib/biointerchange/so.rb, line 12719 def self.reciprocal_chromosomal_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000048') end
An attribute describing an mRNA sequence that has been reprogrammed at translation, causing localized alterations. (purl.obolibrary.org/obo/SO_0000881)
# File lib/biointerchange/so.rb, line 5567 def self.recoded return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000881') end
Recoded mRNA where a block of nucleotides is not translated. (purl.obolibrary.org/obo/SO_0000886)
# File lib/biointerchange/so.rb, line 5597 def self.recoded_by_translational_bypass return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000886') end
A codon that has been redefined at translation. The redefinition may be as a result of translational bypass, translational frameshifting or stop codon readthrough. (purl.obolibrary.org/obo/SO_0000145)
# File lib/biointerchange/so.rb, line 1187 def self.recoded_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000145') end
The sequence of a mature mRNA transcript, modified before translation or during translation, usually by special cis-acting signals. (purl.obolibrary.org/obo/SO_1001261)
# File lib/biointerchange/so.rb, line 13511 def self.recoded_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001261') end
The pseudoknots involved in recoding are unique in that, as they play their role as a structure, they are immediately unfolded and their now linear sequence serves as a template for decoding. (purl.obolibrary.org/obo/SO_0000545)
# File lib/biointerchange/so.rb, line 3589 def self.recoding_pseudoknot return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000545') end
A site in an mRNA sequence that stimulates the recoding of a region in the same mRNA. (purl.obolibrary.org/obo/SO_1001268)
# File lib/biointerchange/so.rb, line 13553 def self.recoding_stimulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001268') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000298)
# File lib/biointerchange/so.rb, line 2109 def self.recombination_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000298') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000300)
# File lib/biointerchange/so.rb, line 2121 def self.recombination_feature_of_rearranged_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000300') end
A region in a genome which promotes recombination. (purl.obolibrary.org/obo/SO_0000339)
# File lib/biointerchange/so.rb, line 2355 def self.recombination_hotspot return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000339') end
A regulatory region that is involved in the control of the process of recombination. (purl.obolibrary.org/obo/SO_0001681)
# File lib/biointerchange/so.rb, line 10297 def self.recombination_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001681') end
A region recognized by a recombinase. (purl.obolibrary.org/obo/SO_0001532)
# File lib/biointerchange/so.rb, line 9451 def self.recombination_signal_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001532') end
A recombinationally rearranged gene by inversion. (purl.obolibrary.org/obo/SO_0000373)
# File lib/biointerchange/so.rb, line 2553 def self.recombinationally_inverted_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000373') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000940)
# File lib/biointerchange/so.rb, line 5921 def self.recombinationally_rearranged return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000940') end
A gene that is recombinationally rearranged. (purl.obolibrary.org/obo/SO_0000456)
# File lib/biointerchange/so.rb, line 3055 def self.recombinationally_rearranged_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000456') end
A recombinationally rearranged gene of the vertebrate immune system. (purl.obolibrary.org/obo/SO_0000941)
# File lib/biointerchange/so.rb, line 5927 def self.recombinationally_rearranged_vertebrate_immune_system_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000941') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#recombined_from)
# File lib/biointerchange/so.rb, line 233 def self.recombined_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#recombined_from') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#recombined_to)
# File lib/biointerchange/so.rb, line 239 def self.recombined_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#recombined_to') end
A recursive splice site is a splice site which subdivides a large intron. Recursive splicing is a mechanism that splices large introns by sub dividing the intron at non exonic elements and alternate exons. (purl.obolibrary.org/obo/SO_0000998)
# File lib/biointerchange/so.rb, line 6263 def self.recursive_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000998') end
A collection of sequences (often chromosomes) taken as the standard for a given organism and genome assembly. (purl.obolibrary.org/obo/SO_0001505)
# File lib/biointerchange/so.rb, line 9289 def self.reference_genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001505') end
A sequence_feature
with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids. (purl.obolibrary.org/obo/SO_0000001)
# File lib/biointerchange/so.rb, line 321 def self.region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000001') end
A regional centromere is a large modular centromere found in fission yeast and higher eukaryotes. It consist of a central core region flanked by inverted inner and outer repeat regions. (purl.obolibrary.org/obo/SO_0001795)
# File lib/biointerchange/so.rb, line 10975 def self.regional_centromere return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001795') end
A conserved region within the central region of a modular centromere, where the kinetochore is formed. (purl.obolibrary.org/obo/SO_0001796)
# File lib/biointerchange/so.rb, line 10981 def self.regional_centromere_central_core return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001796') end
The inner inverted repeat region of a modular centromere and part of the entral core surrounding a non-conserved central region. This region is adjacent to the central core, on each chromosome arm. (purl.obolibrary.org/obo/SO_0001798)
# File lib/biointerchange/so.rb, line 10993 def self.regional_centromere_inner_repeat_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001798') end
The heterochromatic outer repeat region of a modular centromere. These repeats exist in tandem arrays on both chromosome arms. (purl.obolibrary.org/obo/SO_0001799)
# File lib/biointerchange/so.rb, line 10999 def self.regional_centromere_outer_repeat_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001799') end
A transcript that is transcribed from the outer repeat region of a regional centromere. (purl.obolibrary.org/obo/SO_0001905)
# File lib/biointerchange/so.rb, line 11635 def self.regional_centromere_outer_repeat_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001905') end
An attribute to describe a sequence that is regulated. (purl.obolibrary.org/obo/SO_0000119)
# File lib/biointerchange/so.rb, line 1031 def self.regulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000119') end
A promoter element that is not part of the core promoter, but provides the promoter with a specific regulatory region. (purl.obolibrary.org/obo/SO_0001678)
# File lib/biointerchange/so.rb, line 10279 def self.regulatory_promoter_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001678') end
A region of sequence that is involved in the control of a biological process. (purl.obolibrary.org/obo/SO_0005836)
# File lib/biointerchange/so.rb, line 12251 def self.regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005836') end
A feature ablation whereby the deleted region includes a regulatory region. (purl.obolibrary.org/obo/SO_0001894)
# File lib/biointerchange/so.rb, line 11569 def self.regulatory_region_ablation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001894') end
A feature amplification of a region containing a regulatory region. (purl.obolibrary.org/obo/SO_0001891)
# File lib/biointerchange/so.rb, line 11551 def self.regulatory_region_amplification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001891') end
A feature fusion where the deletion brings together regulatory regions. (purl.obolibrary.org/obo/SO_0001887)
# File lib/biointerchange/so.rb, line 11527 def self.regulatory_region_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001887') end
A feature translocation where the region contains a regulatory region. (purl.obolibrary.org/obo/SO_0001884)
# File lib/biointerchange/so.rb, line 11509 def self.regulatory_region_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001884') end
A sequence variant located within a regulatory region. (purl.obolibrary.org/obo/SO_0001566)
# File lib/biointerchange/so.rb, line 9655 def self.regulatory_region_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001566') end
A group of genes, whether linked as a cluster or not, that respond to a common regulatory signal. (purl.obolibrary.org/obo/SO_1001284)
# File lib/biointerchange/so.rb, line 13637 def self.regulon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001284') end
A comment about the sequence. (purl.obolibrary.org/obo/SO_0000700)
# File lib/biointerchange/so.rb, line 4523 def self.remark return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000700') end
A region of a repeated sequence. (purl.obolibrary.org/obo/SO_0000840)
# File lib/biointerchange/so.rb, line 5321 def self.repeat_component return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000840') end
A group of characterized repeat sequences. (purl.obolibrary.org/obo/SO_0000187)
# File lib/biointerchange/so.rb, line 1443 def self.repeat_family return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000187') end
A portion of a repeat, interrupted by the insertion of another element. (purl.obolibrary.org/obo/SO_0001050)
# File lib/biointerchange/so.rb, line 6575 def self.repeat_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001050') end
A region of sequence containing one or more repeat units. (purl.obolibrary.org/obo/SO_0000657)
# File lib/biointerchange/so.rb, line 4265 def self.repeat_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000657') end
The simplest repeated component of a repeat region. A single repeat. (purl.obolibrary.org/obo/SO_0000726)
# File lib/biointerchange/so.rb, line 4679 def self.repeat_unit return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000726') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000292)
# File lib/biointerchange/so.rb, line 2073 def self.repetitive_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000292') end
A regulatory region that is involved in the control of the process of nucleotide replication. (purl.obolibrary.org/obo/SO_0001682)
# File lib/biointerchange/so.rb, line 10303 def self.replication_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001682') end
A region containing at least one unique origin of replication and a unique termination site. (purl.obolibrary.org/obo/SO_0001235)
# File lib/biointerchange/so.rb, line 7681 def self.replicon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001235') end
An attribute describing a region’s ability, when introduced to a mutant organism, to re-establish (rescue) a phenotype. (purl.obolibrary.org/obo/SO_0000814)
# File lib/biointerchange/so.rb, line 5177 def self.rescue return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000814') end
A gene that rescues. (purl.obolibrary.org/obo/SO_0000816)
# File lib/biointerchange/so.rb, line 5189 def self.rescue_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000816') end
A mini_gene
that rescues. (purl.obolibrary.org/obo/SO_0000795)
# File lib/biointerchange/so.rb, line 5087 def self.rescue_mini_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000795') end
A region that rescues. (purl.obolibrary.org/obo/SO_0000411)
# File lib/biointerchange/so.rb, line 2781 def self.rescue_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000411') end
A region specifically recognised by a recombinase, which separates a physically contiguous circle of DNA
into two physically separate circles. (purl.obolibrary.org/obo/SO_0000947)
# File lib/biointerchange/so.rb, line 5963 def self.resolution_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000947') end
A region of DNA
sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends. (purl.obolibrary.org/obo/SO_0001953)
# File lib/biointerchange/so.rb, line 11923 def self.restriction_enzyme_assembly_scar return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001953') end
A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a restriction enzyme. (purl.obolibrary.org/obo/SO_0000061)
# File lib/biointerchange/so.rb, line 683 def self.restriction_enzyme_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000061') end
The boundary at which a restriction enzyme breaks the nucleotide sequence. (purl.obolibrary.org/obo/SO_0001688)
# File lib/biointerchange/so.rb, line 10339 def self.restriction_enzyme_cleavage_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001688') end
A specific nucleotide sequence of DNA
at or near which a particular restriction enzyme cuts the DNA
. (purl.obolibrary.org/obo/SO_0000168)
# File lib/biointerchange/so.rb, line 1325 def self.restriction_enzyme_cut_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000168') end
A terminal region of DNA
sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 5’ end. (purl.obolibrary.org/obo/SO_0001932)
# File lib/biointerchange/so.rb, line 11797 def self.restriction_enzyme_five_prime_single_strand_overhang return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001932') end
The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site. (purl.obolibrary.org/obo/SO_0001687)
# File lib/biointerchange/so.rb, line 10333 def self.restriction_enzyme_recognition_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001687') end
A region related to restriction enzyme function. (purl.obolibrary.org/obo/SO_0001954)
# File lib/biointerchange/so.rb, line 11929 def self.restriction_enzyme_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001954') end
A terminal region of DNA
sequence where the end of the region is not blunt ended. (purl.obolibrary.org/obo/SO_0001695)
# File lib/biointerchange/so.rb, line 10381 def self.restriction_enzyme_single_strand_overhang return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001695') end
A terminal region of DNA
sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 3’ end. (purl.obolibrary.org/obo/SO_0001933)
# File lib/biointerchange/so.rb, line 11803 def self.restriction_enzyme_three_prime_single_strand_overhang return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001933') end
A region of polynucleotide sequence produced by digestion with a restriction endonuclease. (purl.obolibrary.org/obo/SO_0000412)
# File lib/biointerchange/so.rb, line 2787 def self.restriction_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000412') end
A transcription factor binding site of variable direct repeats of the sequence PuGGTCA spaced by five nucleotides (DR5) found in the promoters of retinoic acid-responsive genes, to which retinoic acid receptors bind. (purl.obolibrary.org/obo/SO_0001653)
# File lib/biointerchange/so.rb, line 10129 def self.retinoic_acid_responsive_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001653') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001219)
# File lib/biointerchange/so.rb, line 7585 def self.retrogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001219') end
Sequence coding for a short, single-stranded, DNA
sequence via a retrotransposed RNA
intermediate; characteristic of some microbial genomes. (purl.obolibrary.org/obo/SO_1001275)
# File lib/biointerchange/so.rb, line 13595 def self.retron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001275') end
An attribute of a feature that occurred as the product of a reverse transcriptase mediated event. (purl.obolibrary.org/obo/SO_0000569)
# File lib/biointerchange/so.rb, line 3737 def self.retrotransposed return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000569') end
A transposable element that is incorporated into a chromosome by a mechanism that requires reverse transcriptase. (purl.obolibrary.org/obo/SO_0000180)
# File lib/biointerchange/so.rb, line 1401 def self.retrotransposon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000180') end
Reverse is an attribute of the feature, where the feature is in the 3’ to 5’ direction. Again could be applied to primer. (purl.obolibrary.org/obo/SO_0001031)
# File lib/biointerchange/so.rb, line 6461 def self.reverse return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001031') end
A type of non-canonical base-pairing. (purl.obolibrary.org/obo/SO_0000501)
# File lib/biointerchange/so.rb, line 3325 def self.reverse_Hoogsteen_base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000501') end
A single stranded oligo used for polymerase chain reaction. (purl.obolibrary.org/obo/SO_0000132)
# File lib/biointerchange/so.rb, line 1109 def self.reverse_primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000132') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000981)
# File lib/biointerchange/so.rb, line 6161 def self.rho_dependent_bacterial_terminator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000981') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000982)
# File lib/biointerchange/so.rb, line 6167 def self.rho_independent_bacterial_terminator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000982') end
A region of a transcript encoding the cleavage site for a ribonuclease enzyme. (purl.obolibrary.org/obo/SO_0001977)
# File lib/biointerchange/so.rb, line 12071 def self.ribonuclease_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001977') end
Region in mRNA where ribosome assembles. (purl.obolibrary.org/obo/SO_0000139)
# File lib/biointerchange/so.rb, line 1151 def self.ribosome_entry_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000139') end
A riboswitch is a part of an mRNA that can act as a direct sensor of small molecules to control their own expression. A riboswitch is a cis element in the 5’ end of an mRNA, that acts as a direct sensor of metabolites. (purl.obolibrary.org/obo/SO_0000035)
# File lib/biointerchange/so.rb, line 519 def self.riboswitch return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000035') end
A modified RNA
base in which thymine is bound to the ribose ring. (purl.obolibrary.org/obo/SO_0001232)
# File lib/biointerchange/so.rb, line 7663 def self.ribothymidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001232') end
An RNA
with catalytic activity. (purl.obolibrary.org/obo/SO_0000374)
# File lib/biointerchange/so.rb, line 2559 def self.ribozyme return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000374') end
An attribute describing the sequence of a transcript that has catalytic activity even without an associated ribonucleoprotein. (purl.obolibrary.org/obo/SO_0001186)
# File lib/biointerchange/so.rb, line 7387 def self.ribozymic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001186') end
A right handed helix is a region of peptide where the coiled conformation turns in a clockwise, right handed screw. (purl.obolibrary.org/obo/SO_0001116)
# File lib/biointerchange/so.rb, line 6967 def self.right_handed_peptide_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001116') end
A ring chromosome is a chromosome whose arms have fused together to form a ring, often with the loss of the ends of the chromosome. (purl.obolibrary.org/obo/SO_1000045)
# File lib/biointerchange/so.rb, line 12701 def self.ring_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000045') end
This has been obsoleted as it represents a process. replaced_by: GO:0070581. (purl.obolibrary.org/obo/SO_0000969)
# File lib/biointerchange/so.rb, line 6095 def self.rolling_circle return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000969') end
A loop in ribosomal RNA
containing the sites of attack for ricin and sarcin. (purl.obolibrary.org/obo/SO_0000024)
# File lib/biointerchange/so.rb, line 453 def self.sarcin_like_RNA_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000024') end
The many tandem repeats (identical or related) of a short basic repeating unit; many have a base composition or other property different from the genome average that allows them to be separated from the bulk (main band) genomic DNA
. (purl.obolibrary.org/obo/SO_0000005)
# File lib/biointerchange/so.rb, line 345 def self.satellite_DNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000005') end
A small non coding RNA
sequence, present in the cytoplasm. (purl.obolibrary.org/obo/SO_0000013)
# File lib/biointerchange/so.rb, line 393 def self.scRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000013') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000575)
# File lib/biointerchange/so.rb, line 3773 def self.scRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000575') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001266)
# File lib/biointerchange/so.rb, line 7861 def self.scRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001266') end
The primary transcript of any one of several small cytoplasmic RNA
molecules present in the cytoplasm and sometimes nucleus of a eukaryote. (purl.obolibrary.org/obo/SO_0000012)
# File lib/biointerchange/so.rb, line 387 def self.scRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000012') end
A motif of six or seven consecutive residues that contains two H-bonds. (purl.obolibrary.org/obo/SO_0001123)
# File lib/biointerchange/so.rb, line 7009 def self.schellmann_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001123') end
Wild type: A motif of seven consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+6), the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+5). (purl.obolibrary.org/obo/SO_0001124)
# File lib/biointerchange/so.rb, line 7015 def self.schellmann_loop_seven return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001124') end
Common Type: A motif of six consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+5) the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+4). (purl.obolibrary.org/obo/SO_0001125)
# File lib/biointerchange/so.rb, line 7021 def self.schellmann_loop_six return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001125') end
The score of an experimentally derived feature such as a p-value. (purl.obolibrary.org/obo/SO_0001685)
# File lib/biointerchange/so.rb, line 10321 def self.score return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001685') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001455)
# File lib/biointerchange/so.rb, line 8989 def self.selenocysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001455') end
A primary transcript encoding seryl tRNA (SO:000269). (purl.obolibrary.org/obo/SO_0005856)
# File lib/biointerchange/so.rb, line 12335 def self.selenocysteine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005856') end
A tRNA sequence that has a selenocysteine anticodon, and a 3’ selenocysteine binding region. (purl.obolibrary.org/obo/SO_0005857)
# File lib/biointerchange/so.rb, line 12341 def self.selenocysteinyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005857') end
A sequence_alteration
is a sequence_feature
whose extent is the deviation from another sequence. (purl.obolibrary.org/obo/SO_0001059)
# File lib/biointerchange/so.rb, line 6637 def self.sequence_alteration return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001059') end
A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences. (purl.obolibrary.org/obo/SO_0000353)
# File lib/biointerchange/so.rb, line 2439 def self.sequence_assembly return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000353') end
An attribute describes a quality of sequence. (purl.obolibrary.org/obo/SO_0000400)
# File lib/biointerchange/so.rb, line 2715 def self.sequence_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000400') end
A collection of discontinuous sequences. (purl.obolibrary.org/obo/SO_0001260)
# File lib/biointerchange/so.rb, line 7825 def self.sequence_collection return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001260') end
Different sources report differing sequences. (purl.obolibrary.org/obo/SO_0001085)
# File lib/biointerchange/so.rb, line 6781 def self.sequence_conflict return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001085') end
A region where the sequence differs from that of a specified sequence. (purl.obolibrary.org/obo/SO_0000413)
# File lib/biointerchange/so.rb, line 2793 def self.sequence_difference return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000413') end
Any extent of continuous biological sequence. (purl.obolibrary.org/obo/SO_0000110)
# File lib/biointerchange/so.rb, line 977 def self.sequence_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000110') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000308)
# File lib/biointerchange/so.rb, line 2169 def self.sequence_feature_locating_method return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000308') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000248)
# File lib/biointerchange/so.rb, line 1809 def self.sequence_length_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000248') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000735)
# File lib/biointerchange/so.rb, line 4733 def self.sequence_location return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000735') end
A sequence motif is a nucleotide or amino-acid sequence pattern that may have biological significance. (purl.obolibrary.org/obo/SO_0001683)
# File lib/biointerchange/so.rb, line 10309 def self.sequence_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001683') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#sequence_of)
# File lib/biointerchange/so.rb, line 245 def self.sequence_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#sequence_of') end
An operation that can be applied to a sequence, that results in a change. (purl.obolibrary.org/obo/SO_0000041)
# File lib/biointerchange/so.rb, line 555 def self.sequence_operation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000041') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000669)
# File lib/biointerchange/so.rb, line 4337 def self.sequence_rearrangement_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000669') end
This has been obsoleted as it represents a process. replaced_by: GO:0034961. (purl.obolibrary.org/obo/SO_0000968)
# File lib/biointerchange/so.rb, line 6089 def self.sequence_replication_mode return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000968') end
A folded sequence. (purl.obolibrary.org/obo/SO_0000002)
# File lib/biointerchange/so.rb, line 327 def self.sequence_secondary_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000002') end
Describes the positions in a sequence where the authors are unsure about the sequence assignment. (purl.obolibrary.org/obo/SO_0001086)
# File lib/biointerchange/so.rb, line 6787 def self.sequence_uncertainty return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001086') end
A sequence_variant
is a non exact copy of a sequence_feature
or genome exhibiting one or more sequence_alteration. (purl.obolibrary.org/obo/SO_0001060)
# File lib/biointerchange/so.rb, line 6643 def self.sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001060') end
A mutation that changes the amino acid sequence of the peptide in such a way that it changes the 3D structure of the molecule. (purl.obolibrary.org/obo/SO_1000111)
# File lib/biointerchange/so.rb, line 13061 def self.sequence_variant_affecting_3D_structure_of_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000111') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_0001020)
# File lib/biointerchange/so.rb, line 6395 def self.sequence_variant_affecting_copy_number return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001020') end
Sequence variant affects the editing of the transcript. (purl.obolibrary.org/obo/SO_1000075)
# File lib/biointerchange/so.rb, line 12863 def self.sequence_variant_affecting_editing return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000075') end
A sequence_variant_effect
that changes the gene structure. (purl.obolibrary.org/obo/SO_1000180)
# File lib/biointerchange/so.rb, line 13337 def self.sequence_variant_affecting_gene_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000180') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000102)
# File lib/biointerchange/so.rb, line 13007 def self.sequence_variant_affecting_level_of_translational_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000102') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_0001432)
# File lib/biointerchange/so.rb, line 8851 def self.sequence_variant_affecting_polyadenylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001432') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000105)
# File lib/biointerchange/so.rb, line 13025 def self.sequence_variant_affecting_polypeptide_amino_acid_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000105') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000117)
# File lib/biointerchange/so.rb, line 13085 def self.sequence_variant_affecting_polypeptide_function return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000117') end
A mutation that alters the rate a which transcription of the sequence occurs. (purl.obolibrary.org/obo/SO_1000081)
# File lib/biointerchange/so.rb, line 12893 def self.sequence_variant_affecting_rate_of_transcription return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000081') end
A sequence_variant_effect
which changes the regulatory region of a gene. (purl.obolibrary.org/obo/SO_0000053)
# File lib/biointerchange/so.rb, line 631 def self.sequence_variant_affecting_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000053') end
A sequence_variant_effect
that changes the splice acceptor sequence. (purl.obolibrary.org/obo/SO_1000073)
# File lib/biointerchange/so.rb, line 12851 def self.sequence_variant_affecting_splice_acceptor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000073') end
A sequence_variant_effect
that changes the splice donor sequence. (purl.obolibrary.org/obo/SO_1000072)
# File lib/biointerchange/so.rb, line 12845 def self.sequence_variant_affecting_splice_donor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000072') end
A sequence_variant_effect
where the way in which the primary transcriptional product is processed to form the mature transcript, specifically by the removal (splicing) of intron sequences is changed. (purl.obolibrary.org/obo/SO_1000071)
# File lib/biointerchange/so.rb, line 12839 def self.sequence_variant_affecting_splicing return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000071') end
Sequence variant affects the way in which the primary transcriptional product is processed to form the mature transcript. (purl.obolibrary.org/obo/SO_1000070)
# File lib/biointerchange/so.rb, line 12833 def self.sequence_variant_affecting_transcript_processing return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000070') end
A sequence variant that affects the secondary structure (folding) of the RNA
transcript molecule. (purl.obolibrary.org/obo/SO_1000126)
# File lib/biointerchange/so.rb, line 13139 def self.sequence_variant_affecting_transcript_secondary_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000126') end
Sequence variant affects the stability of the transcript. (purl.obolibrary.org/obo/SO_1000082)
# File lib/biointerchange/so.rb, line 12899 def self.sequence_variant_affecting_transcript_stability return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000082') end
Mutation affects the process of transcription, its initiation, progression or termination. (purl.obolibrary.org/obo/SO_1000076)
# File lib/biointerchange/so.rb, line 12869 def self.sequence_variant_affecting_transcription return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000076') end
A sequence variant causing a change in primary translation product of a transcript. (purl.obolibrary.org/obo/SO_1000088)
# File lib/biointerchange/so.rb, line 12935 def self.sequence_variant_affecting_translational_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000088') end
A sequence variant affecting splicing and causes an exon loss. (purl.obolibrary.org/obo/SO_1000184)
# File lib/biointerchange/so.rb, line 13361 def self.sequence_variant_causes_exon_loss return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000184') end
A sequence variant effect, causing an intron to be gained by the processed transcript; usually a result of a donor acceptor mutation (SO:1000072). (purl.obolibrary.org/obo/SO_1000185)
# File lib/biointerchange/so.rb, line 13367 def self.sequence_variant_causes_intron_gain return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000185') end
The DNA
mutation affects the amino acid coding sequence of a gene; this region includes both the initiator and terminator codons. (purl.obolibrary.org/obo/SO_1000056)
# File lib/biointerchange/so.rb, line 12749 def self.sequence_variant_causing_amino_acid_coding_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000056') end
The deletion of one or more amino acids from the polypeptide, without affecting the surrounding sequence. (purl.obolibrary.org/obo/SO_1000097)
# File lib/biointerchange/so.rb, line 12977 def self.sequence_variant_causing_amino_acid_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000097') end
The insertion of one or more amino acids from the polypeptide, without affecting the surrounding sequence. (purl.obolibrary.org/obo/SO_1000096)
# File lib/biointerchange/so.rb, line 12971 def self.sequence_variant_causing_amino_acid_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000096') end
The replacement of a single amino acid by another. (purl.obolibrary.org/obo/SO_1000093)
# File lib/biointerchange/so.rb, line 12953 def self.sequence_variant_causing_amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000093') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000127)
# File lib/biointerchange/so.rb, line 13145 def self.sequence_variant_causing_compensatory_transcript_secondary_structure_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000127') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000115)
# File lib/biointerchange/so.rb, line 13073 def self.sequence_variant_causing_complex_3D_structural_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000115') end
Any sequence variant effect that is known at nucleotide level but cannot be explained by using other key terms. (purl.obolibrary.org/obo/SO_1000092)
# File lib/biointerchange/so.rb, line 12947 def self.sequence_variant_causing_complex_change_of_translational_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000092') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000116)
# File lib/biointerchange/so.rb, line 13079 def self.sequence_variant_causing_conformational_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000116') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000094)
# File lib/biointerchange/so.rb, line 12959 def self.sequence_variant_causing_conservative_amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000094') end
The amino acid change following from the codon change does not change the gross properties (size, charge, hydrophobicity) of the amino acid at that position. (purl.obolibrary.org/obo/SO_1000060)
# File lib/biointerchange/so.rb, line 12773 def self.sequence_variant_causing_conservative_missense_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000060') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1001186)
# File lib/biointerchange/so.rb, line 13379 def self.sequence_variant_causing_cryptic_splice_acceptor_activation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001186') end
A sequence variant causing a new (functional) splice site. (purl.obolibrary.org/obo/SO_1000074)
# File lib/biointerchange/so.rb, line 12857 def self.sequence_variant_causing_cryptic_splice_activation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000074') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000186)
# File lib/biointerchange/so.rb, line 13373 def self.sequence_variant_causing_cryptic_splice_donor_activation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000186') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000125)
# File lib/biointerchange/so.rb, line 13133 def self.sequence_variant_causing_gain_of_function_of_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000125') end
A sequence_variant_effect
that changes the gene structure by causing a fusion to another gene. (purl.obolibrary.org/obo/SO_1000181)
# File lib/biointerchange/so.rb, line 13343 def self.sequence_variant_causing_gene_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000181') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000120)
# File lib/biointerchange/so.rb, line 13103 def self.sequence_variant_causing_inactive_catalytic_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000120') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000119)
# File lib/biointerchange/so.rb, line 13097 def self.sequence_variant_causing_inactive_ligand_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000119') end
The DNA
mutation changes, usually destroys, the first coding triplet of a gene. Usually prevents translation although another initiator codon may be used. (purl.obolibrary.org/obo/SO_1000055)
# File lib/biointerchange/so.rb, line 12743 def self.sequence_variant_causing_initiator_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000055') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000118)
# File lib/biointerchange/so.rb, line 13091 def self.sequence_variant_causing_loss_of_function_of_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000118') end
A mutation causing a disruption of the translational reading frame, due to the deletion of a nucleotide. (purl.obolibrary.org/obo/SO_1000067)
# File lib/biointerchange/so.rb, line 12815 def self.sequence_variant_causing_minus_1_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000067') end
A mutation causing a disruption of the translational reading frame, due to the deletion of two nucleotides. (purl.obolibrary.org/obo/SO_1000069)
# File lib/biointerchange/so.rb, line 12827 def self.sequence_variant_causing_minus_2_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000069') end
The nucleotide change in the codon leads to a new codon coding for a new amino acid. (purl.obolibrary.org/obo/SO_1000059)
# File lib/biointerchange/so.rb, line 12767 def self.sequence_variant_causing_missense_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000059') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. Also as there is no effect, it is not a good term. (purl.obolibrary.org/obo/SO_1000112)
# File lib/biointerchange/so.rb, line 13067 def self.sequence_variant_causing_no_3D_structural_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000112') end
No effect on the state of the RNA
. (purl.obolibrary.org/obo/SO_1000050)
# File lib/biointerchange/so.rb, line 12731 def self.sequence_variant_causing_no_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000050') end
The sequence variant at RNA
level does not lead to any change in polypeptide. (purl.obolibrary.org/obo/SO_1000089)
# File lib/biointerchange/so.rb, line 12941 def self.sequence_variant_causing_no_change_of_translational_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000089') end
A DNA
point mutation that causes a substitution of an amino acid by an other. (purl.obolibrary.org/obo/SO_1000058)
# File lib/biointerchange/so.rb, line 12761 def self.sequence_variant_causing_non_synonymous_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000058') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000095)
# File lib/biointerchange/so.rb, line 12965 def self.sequence_variant_causing_nonconservative_amino_acid_substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000095') end
The amino acid change following from the codon change changes the gross properties (size, charge, hydrophobicity) of the amino acid in that position. (purl.obolibrary.org/obo/SO_1000061)
# File lib/biointerchange/so.rb, line 12779 def self.sequence_variant_causing_nonconservative_missense_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000061') end
The nucleotide change in the codon triplet creates a terminator codon. (purl.obolibrary.org/obo/SO_1000062)
# File lib/biointerchange/so.rb, line 12785 def self.sequence_variant_causing_nonsense_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000062') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000124)
# File lib/biointerchange/so.rb, line 13127 def self.sequence_variant_causing_partial_loss_of_function_of_polypeptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000124') end
A mutation causing a disruption of the translational reading frame, due to the insertion of a nucleotide. (purl.obolibrary.org/obo/SO_1000066)
# File lib/biointerchange/so.rb, line 12809 def self.sequence_variant_causing_plus_1_frameshift_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000066') end
A mutation causing a disruption of the translational reading frame, due to the insertion of two nucleotides. (purl.obolibrary.org/obo/SO_1000068)
# File lib/biointerchange/so.rb, line 12821 def self.sequence_variant_causing_plus_2_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000068') end
The extension of the translational product at either (or both) the N-terminus and/or the C-terminus. (purl.obolibrary.org/obo/SO_1000099)
# File lib/biointerchange/so.rb, line 12989 def self.sequence_variant_causing_polypeptide_elongation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000099') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000134)
# File lib/biointerchange/so.rb, line 13157 def self.sequence_variant_causing_polypeptide_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000134') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000121)
# File lib/biointerchange/so.rb, line 13109 def self.sequence_variant_causing_polypeptide_localization_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000121') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000122)
# File lib/biointerchange/so.rb, line 13115 def self.sequence_variant_causing_polypeptide_post_translational_processing_change return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000122') end
The translational product is truncated at its C-terminus, usually a result of a nonsense codon change in transcript (SO:1000062). (purl.obolibrary.org/obo/SO_1000098)
# File lib/biointerchange/so.rb, line 12983 def self.sequence_variant_causing_polypeptide_truncation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000098') end
The changed codon has the same translation product as the original codon. (purl.obolibrary.org/obo/SO_1000057)
# File lib/biointerchange/so.rb, line 12755 def self.sequence_variant_causing_synonymous_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000057') end
The nucleotide change in the codon triplet changes the stop codon, causing an elongated transcript sequence. (purl.obolibrary.org/obo/SO_1000063)
# File lib/biointerchange/so.rb, line 12791 def self.sequence_variant_causing_terminator_codon_change_in_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000063') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000103)
# File lib/biointerchange/so.rb, line 13013 def self.sequence_variant_decreasing_level_of_translation_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000103') end
A sequence variation that decreases the rate a which transcription of the sequence occurs. (purl.obolibrary.org/obo/SO_1000078)
# File lib/biointerchange/so.rb, line 12875 def self.sequence_variant_decreasing_rate_of_transcription return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000078') end
Sequence variant decreases the stability (half-life) of the transcript. (purl.obolibrary.org/obo/SO_1000084)
# File lib/biointerchange/so.rb, line 12911 def self.sequence_variant_decreasing_transcript_stability return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000084') end
The effect of a change in nucleotide sequence. (purl.obolibrary.org/obo/SO_1000132)
# File lib/biointerchange/so.rb, line 13151 def self.sequence_variant_effect return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000132') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000104)
# File lib/biointerchange/so.rb, line 13019 def self.sequence_variant_increasing_level_of_translation_product return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000104') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000080)
# File lib/biointerchange/so.rb, line 12887 def self.sequence_variant_increasing_rate_of_transcription return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000080') end
Sequence variant increases the stability (half-life) of the transcript. (purl.obolibrary.org/obo/SO_1000083)
# File lib/biointerchange/so.rb, line 12905 def self.sequence_variant_increasing_transcript_stability return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000083') end
A sequence_variant
is a non exact copy of a sequence_feature
or genome exhibiting one or more sequence_alteration. (purl.obolibrary.org/obo/SO_0000109)
# File lib/biointerchange/so.rb, line 971 def self.sequence_variant_obs return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000109') end
Any of the amino acid coding triplets of a gene are affected by the DNA
mutation. (purl.obolibrary.org/obo/SO_1000054)
# File lib/biointerchange/so.rb, line 12737 def self.sequence_variation_affecting_coding_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000054') end
A sequence variation that causes a change in the level of mature, spliced and processed RNA
, resulting from a change in the corresponding DNA
sequence. (purl.obolibrary.org/obo/SO_1000085)
# File lib/biointerchange/so.rb, line 12917 def self.sequence_variation_affecting_level_of_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000085') end
An umbrella term for terms describing an effect of a sequence variation on the frame of translation. (purl.obolibrary.org/obo/SO_1000064)
# File lib/biointerchange/so.rb, line 12797 def self.sequence_variation_affecting_reading_frame return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000064') end
Any change in mature, spliced and processed, RNA
that results from a change in the corresponding DNA
sequence. (purl.obolibrary.org/obo/SO_1000049)
# File lib/biointerchange/so.rb, line 12725 def self.sequence_variation_affecting_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000049') end
OBSOLETE: This term was deleted as it conflated more than one term. The alteration is separate from the effect. (purl.obolibrary.org/obo/SO_1000079)
# File lib/biointerchange/so.rb, line 12881 def self.sequence_variation_affecting_transcript_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000079') end
A sequence variation that causes a decrease in the level of mature, spliced and processed RNA
, resulting from a change in the corresponding DNA
sequence. (purl.obolibrary.org/obo/SO_1000086)
# File lib/biointerchange/so.rb, line 12923 def self.sequence_variation_decreasing_level_of_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000086') end
A sequence_variation that causes an increase in the level of mature, spliced and processed RNA
, resulting from a change in the corresponding DNA
sequence. (purl.obolibrary.org/obo/SO_1000087)
# File lib/biointerchange/so.rb, line 12929 def self.sequence_variation_increasing_level_of_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000087') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000107)
# File lib/biointerchange/so.rb, line 959 def self.sequencing_primer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000107') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001444)
# File lib/biointerchange/so.rb, line 8923 def self.serine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001444') end
A primary transcript encoding seryl tRNA (SO:000269). (purl.obolibrary.org/obo/SO_0000226)
# File lib/biointerchange/so.rb, line 1677 def self.serine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000226') end
A motif of five consecutive residues and two hydrogen bonds in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3) , the main-chain CO group of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4). (purl.obolibrary.org/obo/SO_0001126)
# File lib/biointerchange/so.rb, line 7027 def self.serine_threonine_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001126') end
A motif of four or five consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain OH of residue(i) is H-bonded to the main-chain CO of residue(i3) or (i4), Phi angles of residues(i1), (i2) and (i3) are negative. (purl.obolibrary.org/obo/SO_0001127)
# File lib/biointerchange/so.rb, line 7033 def self.serine_threonine_staple_motif return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001127') end
A motif of three consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2). (purl.obolibrary.org/obo/SO_0001141)
# File lib/biointerchange/so.rb, line 7117 def self.serine_threonine_turn return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001141') end
A tRNA sequence that has a serine anticodon, and a 3’ serine binding region. (purl.obolibrary.org/obo/SO_0000269)
# File lib/biointerchange/so.rb, line 1935 def self.seryl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000269') end
7_aminomethyl_7_deazaguanosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001322)
# File lib/biointerchange/so.rb, line 8197 def self.seven_aminomethyl_seven_deazaguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001322') end
7_cyano_7_deazaguanosine is a modified 7-deazoguanosine. (purl.obolibrary.org/obo/SO_0001321)
# File lib/biointerchange/so.rb, line 8191 def self.seven_cyano_seven_deazaguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001321') end
7-deazaguanosine is a moddified guanosine. (purl.obolibrary.org/obo/SO_0001316)
# File lib/biointerchange/so.rb, line 8161 def self.seven_deazaguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001316') end
A modified RNA
base in which guanine is methylated at the 7- position. (purl.obolibrary.org/obo/SO_0001231)
# File lib/biointerchange/so.rb, line 7657 def self.seven_methylguanine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001231') end
7_methylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001326)
# File lib/biointerchange/so.rb, line 8221 def self.seven_methylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001326') end
A small RNA
oligo, typically about 20 bases, that guides the cas nuclease to a target DNA
sequence in the CRISPR/cas mutagenesis method. (purl.obolibrary.org/obo/SO_0001998)
# File lib/biointerchange/so.rb, line 12191 def self.sgRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001998') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001482)
# File lib/biointerchange/so.rb, line 9151 def self.shadow_enhancer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001482') end
A small RNA
molecule that is the product of a longer exogenous or endogenous dsRNA, which is either a bimolecular duplex or very long hairpin, processed (via the Dicer pathway) such that numerous siRNAs accumulate from both strands of the dsRNA. SRNAs trigger the cleavage of their target molecules. (purl.obolibrary.org/obo/SO_0000646)
# File lib/biointerchange/so.rb, line 4199 def self.siRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000646') end
A signal sequence that is not cleaved from the polypeptide. Anchors a Type II membrane protein to the membrane. (purl.obolibrary.org/obo/SO_0001809)
# File lib/biointerchange/so.rb, line 11059 def self.signal_anchor return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001809') end
The signal_peptide
is a short region of the peptide located at the N-terminus that directs the protein to be secreted or part of membrane components. (purl.obolibrary.org/obo/SO_0000418)
# File lib/biointerchange/so.rb, line 2823 def self.signal_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000418') end
A region of sequence where developer information is encoded. (purl.obolibrary.org/obo/SO_0001978)
# File lib/biointerchange/so.rb, line 12077 def self.signature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001978') end
An attribute describing an epigenetic process where a gene is inactivated at transcriptional or translational level. (purl.obolibrary.org/obo/SO_0000893)
# File lib/biointerchange/so.rb, line 5639 def self.silenced return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000893') end
An attribute describing an epigenetic process where a gene is inactivated by DNA
methylation, resulting in repression of transcription. (purl.obolibrary.org/obo/SO_0000895)
# File lib/biointerchange/so.rb, line 5651 def self.silenced_by_DNA_methylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000895') end
An attribute describing an epigenetic process where a gene is inactivated by DNA
modifications, resulting in repression of transcription. (purl.obolibrary.org/obo/SO_0000894)
# File lib/biointerchange/so.rb, line 5645 def self.silenced_by_DNA_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000894') end
An attribute describing an epigenetic process where a gene is inactivated by RNA
interference. (purl.obolibrary.org/obo/SO_0001220)
# File lib/biointerchange/so.rb, line 7591 def self.silenced_by_RNA_interference return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001220') end
An attribute describing an epigenetic process where a gene is inactivated by histone deacetylation. (purl.obolibrary.org/obo/SO_0001223)
# File lib/biointerchange/so.rb, line 7609 def self.silenced_by_histone_deacetylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001223') end
An attribute describing an epigenetic process where a gene is inactivated by histone methylation. (purl.obolibrary.org/obo/SO_0001222)
# File lib/biointerchange/so.rb, line 7603 def self.silenced_by_histone_methylation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001222') end
An attribute describing an epigenetic process where a gene is inactivated by histone modification. (purl.obolibrary.org/obo/SO_0001221)
# File lib/biointerchange/so.rb, line 7597 def self.silenced_by_histone_modification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001221') end
A gene that is silenced. (purl.obolibrary.org/obo/SO_0000127)
# File lib/biointerchange/so.rb, line 1079 def self.silenced_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000127') end
A regulatory region which upon binding of transcription factors, suppress the transcription of the gene or genes they control. (purl.obolibrary.org/obo/SO_0000625)
# File lib/biointerchange/so.rb, line 4073 def self.silencer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000625') end
A gene cassette array that corresponds to a silenced version of a mating type region. (purl.obolibrary.org/obo/SO_0001984)
# File lib/biointerchange/so.rb, line 12107 def self.silent_mating_type_cassette_array return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001984') end
A sequence variant that does not affect protein function. Silent mutations may occur in genic ( CDS
, UTR
, intron etc) and intergenic regions. Silent mutations may have affects on processes such as splicing and regulation. (purl.obolibrary.org/obo/SO_0001017)
# File lib/biointerchange/so.rb, line 6377 def self.silent_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001017') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#similar_to)
# File lib/biointerchange/so.rb, line 251 def self.similar_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#similar_to') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000207)
# File lib/biointerchange/so.rb, line 1563 def self.simple_sequence_length_variation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000207') end
Attributes added to describe the different kinds of replicon. SO
workshop, September 2006. (purl.obolibrary.org/obo/SO_0000984)
# File lib/biointerchange/so.rb, line 6179 def self.single return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000984') end
A restriction enzyme cleavage site whereby only one strand is cut. (purl.obolibrary.org/obo/SO_0001694)
# File lib/biointerchange/so.rb, line 10375 def self.single_strand_restriction_enzyme_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001694') end
Structural unit composed of a self-replicating, single-stranded DNA
molecule. (purl.obolibrary.org/obo/SO_0000956)
# File lib/biointerchange/so.rb, line 6017 def self.single_stranded_DNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000956') end
Structural unit composed of a self-replicating, single-stranded RNA
molecule. (purl.obolibrary.org/obo/SO_0000962)
# File lib/biointerchange/so.rb, line 6053 def self.single_stranded_RNA_chromosome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000962') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000757)
# File lib/biointerchange/so.rb, line 4865 def self.single_stranded_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000757') end
The interbase position where something (eg an aberration) occurred. (purl.obolibrary.org/obo/SO_0000408)
# File lib/biointerchange/so.rb, line 2763 def self.site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000408') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000342)
# File lib/biointerchange/so.rb, line 2373 def self.site_specific_recombination_target_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000342') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000249)
# File lib/biointerchange/so.rb, line 1815 def self.six_cutter_restriction_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000249') end
A smFISH is a probe that binds RNA
in a single molecule in situ hybridization experiment. (purl.obolibrary.org/obo/SO_0001854)
# File lib/biointerchange/so.rb, line 11329 def self.smFISH_probe return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001854') end
A non-coding RNA
, usually with a specific secondary structure, that acts to regulate gene expression. (purl.obolibrary.org/obo/SO_0000370)
# File lib/biointerchange/so.rb, line 2535 def self.small_regulatory_ncRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000370') end
Ribosomal RNA
transcript that structures the small subunit of the ribosome. (purl.obolibrary.org/obo/SO_0000650)
# File lib/biointerchange/so.rb, line 4223 def self.small_subunit_rRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000650') end
A small nuclear RNA
molecule involved in pre-mRNA splicing and processing. (purl.obolibrary.org/obo/SO_0000274)
# File lib/biointerchange/so.rb, line 1965 def self.snRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000274') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000623)
# File lib/biointerchange/so.rb, line 4061 def self.snRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000623') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001268)
# File lib/biointerchange/so.rb, line 7873 def self.snRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001268') end
A primary transcript encoding a small nuclear RNA
(SO:0000274). (purl.obolibrary.org/obo/SO_0000231)
# File lib/biointerchange/so.rb, line 1707 def self.snRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000231') end
A snoRNA (small nucleolar RNA
) is any one of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA
, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA
. (purl.obolibrary.org/obo/SO_0000275)
# File lib/biointerchange/so.rb, line 1971 def self.snoRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000275') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000578)
# File lib/biointerchange/so.rb, line 3791 def self.snoRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000578') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001267)
# File lib/biointerchange/so.rb, line 7867 def self.snoRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001267') end
A primary transcript encoding a small nucleolar mRNA (SO:0000275). (purl.obolibrary.org/obo/SO_0000232)
# File lib/biointerchange/so.rb, line 1713 def self.snoRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000232') end
A recombination product between the 2 LTR of the same element. (purl.obolibrary.org/obo/SO_0001003)
# File lib/biointerchange/so.rb, line 6293 def self.solo_LTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001003') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001777)
# File lib/biointerchange/so.rb, line 10873 def self.somatic_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001777') end
A DNA
fragment generated by sonication. Sonication is a technique used to sheer DNA
into smaller fragments. (purl.obolibrary.org/obo/SO_0001253)
# File lib/biointerchange/so.rb, line 7783 def self.sonicate_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001253') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000299)
# File lib/biointerchange/so.rb, line 2115 def self.specific_recombination_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000299') end
A splice variant that changes the 2 base region at the 3’ end of an intron. (purl.obolibrary.org/obo/SO_0001574)
# File lib/biointerchange/so.rb, line 9703 def self.splice_acceptor_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001574') end
A sequence variant that causes a change at the 5th base pair after the start of the intron in the orientation of the transcript. (purl.obolibrary.org/obo/SO_0001787)
# File lib/biointerchange/so.rb, line 10927 def self.splice_donor_5th_base_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001787') end
A splice variant that changes the 2 base pair region at the 5’ end of an intron. (purl.obolibrary.org/obo/SO_0001575)
# File lib/biointerchange/so.rb, line 9709 def self.splice_donor_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001575') end
Region of a transcript that regulates splicing. (purl.obolibrary.org/obo/SO_0000344)
# File lib/biointerchange/so.rb, line 2385 def self.splice_enhancer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000344') end
The boundary between an intron and an exon. (purl.obolibrary.org/obo/SO_0001421)
# File lib/biointerchange/so.rb, line 8791 def self.splice_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001421') end
A region surrounding a cis_splice site, either within 1-3 bases of the exon or 3-8 bases of the intron. (purl.obolibrary.org/obo/SO_0001902)
# File lib/biointerchange/so.rb, line 11617 def self.splice_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001902') end
A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron. (purl.obolibrary.org/obo/SO_0001630)
# File lib/biointerchange/so.rb, line 10015 def self.splice_region_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001630') end
Consensus region of primary transcript bordering junction of splicing. A region that overlaps exactly 2 base and adjacent_to
splice_junction. (purl.obolibrary.org/obo/SO_0000162)
# File lib/biointerchange/so.rb, line 1289 def self.splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000162') end
A sequence variant that changes the first two or last two bases of an intron, or the 5th base from the start of the intron in the orientation of the transcript. (purl.obolibrary.org/obo/SO_0001629)
# File lib/biointerchange/so.rb, line 10009 def self.splice_site_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001629') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000636)
# File lib/biointerchange/so.rb, line 4139 def self.spliced_leader_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000636') end
An intron which is spliced by the spliceosome. (purl.obolibrary.org/obo/SO_0000662)
# File lib/biointerchange/so.rb, line 4295 def self.spliceosomal_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000662') end
A region within an intron. (purl.obolibrary.org/obo/SO_0000841)
# File lib/biointerchange/so.rb, line 5327 def self.spliceosomal_intron_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000841') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000682)
# File lib/biointerchange/so.rb, line 4415 def self.splicing_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000682') end
A regulatory_region
that modulates splicing. (purl.obolibrary.org/obo/SO_0001056)
# File lib/biointerchange/so.rb, line 6619 def self.splicing_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001056') end
A sequence variant that changes the process of splicing. (purl.obolibrary.org/obo/SO_0001568)
# File lib/biointerchange/so.rb, line 9667 def self.splicing_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001568') end
A 109-nucleotide RNA
of E. coli that seems to have a regulatory role on the galactose operon. Changes in Spot 42 levels are implicated in affecting DNA
polymerase I levels. (purl.obolibrary.org/obo/SO_0000389)
# File lib/biointerchange/so.rb, line 2649 def self.spot_42_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000389') end
A single stranded oligonucleotide. (purl.obolibrary.org/obo/SO_0000441)
# File lib/biointerchange/so.rb, line 2965 def self.ss_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000441') end
Non-coding RNAs of about 21 nucleotides in length that regulate temporal development; first discovered in C. elegans. (purl.obolibrary.org/obo/SO_0000649)
# File lib/biointerchange/so.rb, line 4217 def self.stRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000649') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000656)
# File lib/biointerchange/so.rb, line 4259 def self.stRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000656') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001270)
# File lib/biointerchange/so.rb, line 7885 def self.stRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001270') end
A primary transcript encoding a small temporal mRNA (SO:0000649). (purl.obolibrary.org/obo/SO_0000648)
# File lib/biointerchange/so.rb, line 4211 def self.stRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000648') end
The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001142)
# File lib/biointerchange/so.rb, line 7123 def self.st_turn_left_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001142') end
The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001143)
# File lib/biointerchange/so.rb, line 7129 def self.st_turn_left_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001143') end
The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees. (purl.obolibrary.org/obo/SO_0001144)
# File lib/biointerchange/so.rb, line 7135 def self.st_turn_right_handed_type_one return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001144') end
The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees. (purl.obolibrary.org/obo/SO_0001145)
# File lib/biointerchange/so.rb, line 7141 def self.st_turn_right_handed_type_two return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001145') end
The status of a whole genome sequence, where the data is minimally filtered or un-filtered, from any number of sequencing platforms, and is assembled into contigs. Genome sequence of this quality may harbour regions of poor quality and can be relatively incomplete. (purl.obolibrary.org/obo/SO_0001486)
# File lib/biointerchange/so.rb, line 9175 def self.standard_draft return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001486') end
First codon to be translated by a ribosome. (purl.obolibrary.org/obo/SO_0000318)
# File lib/biointerchange/so.rb, line 2229 def self.start_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000318') end
X is strted_by Y if Y is part_of
X and X and Y share a 5’ boundary. (purl.obolibrary.org/obo/so_2_5_2.obo#started_by)
# File lib/biointerchange/so.rb, line 257 def self.started_by return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#started_by') end
X starts Y if X is part of Y, and A and Y share a 5’ or N-terminal boundary. (purl.obolibrary.org/obo/so_2_5_2.obo#starts)
# File lib/biointerchange/so.rb, line 263 def self.starts return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#starts') end
An attribute describing the status of a feature, based on the available evidence. (purl.obolibrary.org/obo/SO_0000905)
# File lib/biointerchange/so.rb, line 5711 def self.status return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000905') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001255)
# File lib/biointerchange/so.rb, line 13493 def self.status_of_coding_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001255') end
A double-helical region of nucleic acid formed by base-pairing between adjacent (inverted) complementary sequences. (purl.obolibrary.org/obo/SO_0000313)
# File lib/biointerchange/so.rb, line 2199 def self.stem_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000313') end
A 10-bp promoter element bound by sterol regulatory element binding proteins (SREBPs), found in promoters of genes involved in sterol metabolism. Many variants of the sequence ATCACCCCAC function as SREs. (purl.obolibrary.org/obo/SO_0001861)
# File lib/biointerchange/so.rb, line 11371 def self.sterol_regulatory_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001861') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001692)
# File lib/biointerchange/so.rb, line 10363 def self.sticky_end_restriction_enzyme_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001692') end
In mRNA, a set of three nucleotides that indicates the end of information for protein synthesis. (purl.obolibrary.org/obo/SO_0000319)
# File lib/biointerchange/so.rb, line 2235 def self.stop_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000319') end
A stop codon redefined to be a new amino acid. (purl.obolibrary.org/obo/SO_0000883)
# File lib/biointerchange/so.rb, line 5579 def self.stop_codon_read_through return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000883') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001267)
# File lib/biointerchange/so.rb, line 13547 def self.stop_codon_readthrough return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001267') end
A stop codon redefined to be the new amino acid, pyrrolysine. (purl.obolibrary.org/obo/SO_0000884)
# File lib/biointerchange/so.rb, line 5585 def self.stop_codon_redefined_as_pyrrolysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000884') end
A stop codon redefined to be the new amino acid, selenocysteine. (purl.obolibrary.org/obo/SO_0000885)
# File lib/biointerchange/so.rb, line 5591 def self.stop_codon_redefined_as_selenocysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000885') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001270)
# File lib/biointerchange/so.rb, line 13565 def self.stop_codon_redefinition_as_pyrrolysine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001270') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1001266)
# File lib/biointerchange/so.rb, line 13541 def self.stop_codon_redefinition_as_selenocysteine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001266') end
A recoding stimulatory signal that is a stop codon and has effect on efficiency of recoding. (purl.obolibrary.org/obo/SO_1001288)
# File lib/biointerchange/so.rb, line 13661 def self.stop_codon_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001288') end
A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript. (purl.obolibrary.org/obo/SO_0001587)
# File lib/biointerchange/so.rb, line 9769 def self.stop_gained return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001587') end
A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript. (purl.obolibrary.org/obo/SO_0001578)
# File lib/biointerchange/so.rb, line 9727 def self.stop_lost return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001578') end
A sequence variant where at least one base in the terminator codon is changed, but the terminator remains. (purl.obolibrary.org/obo/SO_0001567)
# File lib/biointerchange/so.rb, line 9661 def self.stop_retained_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001567') end
Attributes added to describe the different kinds of replicon. SO
workshop, September 2006. (purl.obolibrary.org/obo/SO_0000983)
# File lib/biointerchange/so.rb, line 6173 def self.strand_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000983') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001785)
# File lib/biointerchange/so.rb, line 10915 def self.structural_alteration return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001785') end
A sequence variant that changes one or more sequence features. (purl.obolibrary.org/obo/SO_0001537)
# File lib/biointerchange/so.rb, line 9481 def self.structural_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001537') end
To substitute a subsection of sequence for another. (purl.obolibrary.org/obo/SO_0000048)
# File lib/biointerchange/so.rb, line 597 def self.substitute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000048') end
An edit to substitute an I for an A. (purl.obolibrary.org/obo/SO_0000919)
# File lib/biointerchange/so.rb, line 5795 def self.substitute_A_to_I return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000919') end
An edit to substitute an U for a C. (purl.obolibrary.org/obo/SO_0000922)
# File lib/biointerchange/so.rb, line 5813 def self.substitute_C_to_U return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000922') end
A sequence alteration where the length of the change in the variant is the same as that of the reference. (purl.obolibrary.org/obo/SO_1000002)
# File lib/biointerchange/so.rb, line 12479 def self.substitution return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000002') end
A heterochromatic region of the chromosome, adjacent to the telomere (on the centromeric side) that contains repetitive DNA
and sometimes genes and it is transcribed. (purl.obolibrary.org/obo/SO_0001997)
# File lib/biointerchange/so.rb, line 12185 def self.subtelomere return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001997') end
A type of non-canonical base-pairing. (purl.obolibrary.org/obo/SO_0000030)
# File lib/biointerchange/so.rb, line 489 def self.sugar_edge_base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000030') end
One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N’s. (purl.obolibrary.org/obo/SO_0000148)
# File lib/biointerchange/so.rb, line 1205 def self.supercontig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000148') end
An attribute to describe a feature that has been predicted using sequence similarity to EST
or cDNA data. (purl.obolibrary.org/obo/SO_0000909)
# File lib/biointerchange/so.rb, line 5735 def self.supported_by_EST_or_cDNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000909') end
An attribute to describe a feature that has been predicted using sequence similarity of a known domain. (purl.obolibrary.org/obo/SO_0000908)
# File lib/biointerchange/so.rb, line 5729 def self.supported_by_domain_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000908') end
An attribute to describe a feature that has been predicted using sequence similarity techniques. (purl.obolibrary.org/obo/SO_0000907)
# File lib/biointerchange/so.rb, line 5723 def self.supported_by_sequence_similarity return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000907') end
A transmissible element containing genes involved in symbiosis, analogous to the pathogenicity islands of gram negative bacteria. (purl.obolibrary.org/obo/SO_0000776)
# File lib/biointerchange/so.rb, line 4973 def self.symbiosis_island return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000776') end
An internal RNA
loop where the extent of the loop on both stands is the same size. (purl.obolibrary.org/obo/SO_0000025)
# File lib/biointerchange/so.rb, line 459 def self.symmetric_RNA_internal_loop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000025') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001815)
# File lib/biointerchange/so.rb, line 11095 def self.synonymous return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001815') end
A sequence variant where there is no resulting change to the encoded amino acid. (purl.obolibrary.org/obo/SO_0001819)
# File lib/biointerchange/so.rb, line 11119 def self.synonymous_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001819') end
Attribute describing sequence regions occurring in same order on chromosome of different species. (purl.obolibrary.org/obo/SO_0000860)
# File lib/biointerchange/so.rb, line 5441 def self.syntenic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000860') end
A region in which two or more pairs of homologous markers occur on the same chromosome in two or more species. (purl.obolibrary.org/obo/SO_0005858)
# File lib/biointerchange/so.rb, line 12347 def self.syntenic_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0005858') end
An oligo composed of synthetic nucleotides. (purl.obolibrary.org/obo/SO_0001247)
# File lib/biointerchange/so.rb, line 7747 def self.synthetic_oligo return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001247') end
An attribute to decide a sequence of nucleotides, nucleotide analogs, or amino acids that has been designed by an experimenter and which may, or may not, correspond with any natural sequence. (purl.obolibrary.org/obo/SO_0000351)
# File lib/biointerchange/so.rb, line 2427 def self.synthetic_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000351') end
Transfer RNA
(tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. Transfer RNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3’ end, to which the tRNA’s corresponding amino acid is attached (by aminoacyl-tRNA synthetases). Transfer RNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and ‘wobble’ base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position. (purl.obolibrary.org/obo/SO_0000253)
# File lib/biointerchange/so.rb, line 1839 def self.tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000253') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000663)
# File lib/biointerchange/so.rb, line 4301 def self.tRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000663') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001272)
# File lib/biointerchange/so.rb, line 7897 def self.tRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001272') end
An intron found in tRNA that is spliced via endonucleolytic cleavage and ligation rather than transesterification. (purl.obolibrary.org/obo/SO_1001272)
# File lib/biointerchange/so.rb, line 13577 def self.tRNA_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001272') end
A primary transcript encoding a transfer RNA
(SO:0000253). (purl.obolibrary.org/obo/SO_0000210)
# File lib/biointerchange/so.rb, line 1581 def self.tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000210') end
A region of a tRNA. (purl.obolibrary.org/obo/SO_0001172)
# File lib/biointerchange/so.rb, line 7303 def self.tRNA_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001172') end
A nucleotide sequence that may be used to identify a larger sequence. (purl.obolibrary.org/obo/SO_0000324)
# File lib/biointerchange/so.rb, line 2265 def self.tag return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000324') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001513)
# File lib/biointerchange/so.rb, line 9337 def self.tandem return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001513') end
A duplication consisting of 2 identical adjacent regions. (purl.obolibrary.org/obo/SO_1000173)
# File lib/biointerchange/so.rb, line 13325 def self.tandem_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000173') end
Two or more adjcent copies of a region (of length greater than 1). (purl.obolibrary.org/obo/SO_0000705)
# File lib/biointerchange/so.rb, line 4553 def self.tandem_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000705') end
A sequence of the target DNA
that is duplicated when a transposable element or phage inserts; usually found at each end the insertion. (purl.obolibrary.org/obo/SO_0000434)
# File lib/biointerchange/so.rb, line 2919 def self.target_site_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000434') end
An engineered vector that is able to take part in homologous recombination in a host with the intent of introducing site specific genomic modifications. (purl.obolibrary.org/obo/SO_0001644)
# File lib/biointerchange/so.rb, line 10099 def self.targeting_vector return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001644') end
The sequence of a 21 nucleotide double stranded, polyadenylated non coding RNA
, transcribed from the TAS gene. (purl.obolibrary.org/obo/SO_0001800)
# File lib/biointerchange/so.rb, line 11005 def self.tasiRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001800') end
A primary transcript encoding a tasiRNA. (purl.obolibrary.org/obo/SO_0001801)
# File lib/biointerchange/so.rb, line 11011 def self.tasiRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001801') end
The RNA
component of telomerase, a reverse transcriptase that synthesizes telomeric DNA
. (purl.obolibrary.org/obo/SO_0000390)
# File lib/biointerchange/so.rb, line 2655 def self.telomerase_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000390') end
A telomerase RNA
gene is a non coding RNA
gene the RNA
product of which is a component of telomerase. (purl.obolibrary.org/obo/SO_0001643)
# File lib/biointerchange/so.rb, line 10093 def self.telomerase_RNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001643') end
A specific structure at the end of a linear chromosome, required for the integrity and maintenance of the end. (purl.obolibrary.org/obo/SO_0000624)
# File lib/biointerchange/so.rb, line 4067 def self.telomere return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000624') end
The telomeric repeat is a repeat region, part of the chromosome, which in yeast, is a G-rich terminal sequence of the form (TG(1-3))n or more precisely ((TG)(1-6)TG(2-3))n. (purl.obolibrary.org/obo/SO_0001496)
# File lib/biointerchange/so.rb, line 9235 def self.telomeric_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001496') end
A non-coding transcript derived from thetranscript of the telomere. (purl.obolibrary.org/obo/SO_0001927)
# File lib/biointerchange/so.rb, line 11767 def self.telomeric_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001927') end
A region of a guide_RNA
that specifies the insertions and deletions of bases in the editing of a target mRNA. (purl.obolibrary.org/obo/SO_0000978)
# File lib/biointerchange/so.rb, line 6143 def self.template_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000978') end
An inverted repeat (SO:0000294) occurring at the termini of a DNA
transposon. (purl.obolibrary.org/obo/SO_0000481)
# File lib/biointerchange/so.rb, line 3205 def self.terminal_inverted_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000481') end
A DNA
transposable element defined as having termini with perfect, or nearly perfect short inverted repeats, generally 10 - 40 nucleotides long. (purl.obolibrary.org/obo/SO_0000208)
# File lib/biointerchange/so.rb, line 1569 def self.terminal_inverted_repeat_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000208') end
The sequence of DNA
located either at the end of the transcript that causes RNA
polymerase to terminate transcription. (purl.obolibrary.org/obo/SO_0000141)
# File lib/biointerchange/so.rb, line 1163 def self.terminator return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000141') end
A sequence variant whereby at least one of the bases in the terminator codon is changed. (purl.obolibrary.org/obo/SO_0001590)
# File lib/biointerchange/so.rb, line 9781 def self.terminator_codon_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001590') end
A terminator signal for RNA
polymerase III transcription. (purl.obolibrary.org/obo/SO_0000615)
# File lib/biointerchange/so.rb, line 4013 def self.terminator_of_type_2_RNApol_III_promoter return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000615') end
A base-paired stem with loop of 4 non-hydrogen bonded nucleotides. (purl.obolibrary.org/obo/SO_0001008)
# File lib/biointerchange/so.rb, line 6323 def self.tetraloop return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001008') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000641)
# File lib/biointerchange/so.rb, line 4169 def self.tetranucleotide_repeat_microsatellite_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000641') end
This has been obsoleted as it represents a process. replaced_by: GO:0070582 (purl.obolibrary.org/obo/SO_0000970)
# File lib/biointerchange/so.rb, line 6101 def self.theta_replication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000970') end
3-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001281)
# File lib/biointerchange/so.rb, line 7951 def self.three_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001281') end
3_methylpseudouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001377)
# File lib/biointerchange/so.rb, line 8527 def self.three_methylpseudouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001377') end
3_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001372)
# File lib/biointerchange/so.rb, line 8497 def self.three_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001372') end
7 nucleotide recombination site like CACAGTG, part of a 3’ D-recombination signal sequence of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000493)
# File lib/biointerchange/so.rb, line 3277 def self.three_prime_D_heptamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000493') end
A 9 nucleotide recombination site (e.g. ACAAAAACC), part of a 3’ D-recombination signal sequence of an immunoglobulin/T-cell receptor gene. (purl.obolibrary.org/obo/SO_0000494)
# File lib/biointerchange/so.rb, line 3283 def self.three_prime_D_nonamer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000494') end
Recombination signal of an immunoglobulin/T-cell receptor gene, including the 3’ D-heptamer (SO:0000493), 3’ D-spacer, and 3’ D-nonamer (SO:0000494) in 3’ of the D-region of a D-gene. (purl.obolibrary.org/obo/SO_0000570)
# File lib/biointerchange/so.rb, line 3743 def self.three_prime_D_recombination_signal_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000570') end
A 12 or 23 nucleotide spacer between the 3’D-HEPTAMER and 3’D-NONAMER of a 3’D-RS. (purl.obolibrary.org/obo/SO_0000495)
# File lib/biointerchange/so.rb, line 3289 def self.three_prime_D_spacer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000495') end
An EST
read from the 3’ end of a transcript. They are more likely to fall within non-coding, or untranslated regions(UTRs). (purl.obolibrary.org/obo/SO_0001209)
# File lib/biointerchange/so.rb, line 7525 def self.three_prime_EST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001209') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000426)
# File lib/biointerchange/so.rb, line 2871 def self.three_prime_LTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000426') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000849)
# File lib/biointerchange/so.rb, line 5375 def self.three_prime_LTR_component return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000849') end
A three prime RACE (Rapid Amplification of cDNA Ends) clone is a cDNA clone copied from the 3’ end of an mRNA (using a poly-dT primer to capture the polyA tail and a gene-specific or randomly primed 5’ primer), and spliced into a vector for propagation in a suitable host. (purl.obolibrary.org/obo/SO_0001433)
# File lib/biointerchange/so.rb, line 8857 def self.three_prime_RACE_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001433') end
A tag produced from a single sequencing read from a 3’-RACE product; typically a few hundred base pairs long. (purl.obolibrary.org/obo/SO_0001468)
# File lib/biointerchange/so.rb, line 9067 def self.three_prime_RST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001468') end
A UST
located in the 3’UTR of a protein-coding transcript. (purl.obolibrary.org/obo/SO_0001465)
# File lib/biointerchange/so.rb, line 9049 def self.three_prime_UST return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001465') end
A region at the 3’ end of a mature transcript (following the stop codon) that is not translated into a protein. (purl.obolibrary.org/obo/SO_0000205)
# File lib/biointerchange/so.rb, line 1551 def self.three_prime_UTR return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000205') end
An intron located in the 3’ UTR
. (purl.obolibrary.org/obo/SO_0000448)
# File lib/biointerchange/so.rb, line 3007 def self.three_prime_UTR_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000448') end
Intronic 2 bp region bordering the exon, at the 3’ edge of the intron. A splice_site
that is upstream_adjacent_to exon and finishes intron. (purl.obolibrary.org/obo/SO_0000164)
# File lib/biointerchange/so.rb, line 1301 def self.three_prime_cis_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000164') end
3’-most region of a precursor transcript that is clipped off during processing. (purl.obolibrary.org/obo/SO_0000557)
# File lib/biointerchange/so.rb, line 3665 def self.three_prime_clip return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000557') end
The coding exon that is most 3-prime on a given transcript. (purl.obolibrary.org/obo/SO_0000202)
# File lib/biointerchange/so.rb, line 1533 def self.three_prime_coding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000202') end
The sequence of the three_prime_coding_exon
that codes for protein. (purl.obolibrary.org/obo/SO_0000197)
# File lib/biointerchange/so.rb, line 1503 def self.three_prime_coding_exon_coding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000197') end
The sequence of the 3’ exon that is not coding. (purl.obolibrary.org/obo/SO_0000484)
# File lib/biointerchange/so.rb, line 3223 def self.three_prime_coding_exon_noncoding_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000484') end
An attribute to describe a gene when the 3’ region overlaps with another gene’s 5’ region. (purl.obolibrary.org/obo/SO_0000076)
# File lib/biointerchange/so.rb, line 773 def self.three_prime_five_prime_overlap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000076') end
A flanking region located three prime of a specific region. (purl.obolibrary.org/obo/SO_0001417)
# File lib/biointerchange/so.rb, line 8767 def self.three_prime_flanking_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001417') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000192)
# File lib/biointerchange/so.rb, line 1473 def self.three_prime_intron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000192') end
Non-coding exon in the 3’ UTR
. (purl.obolibrary.org/obo/SO_0000444)
# File lib/biointerchange/so.rb, line 2983 def self.three_prime_noncoding_exon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000444') end
The recoding stimulatory signal located downstream of the recoding site. (purl.obolibrary.org/obo/SO_1001277)
# File lib/biointerchange/so.rb, line 13601 def self.three_prime_recoding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001277') end
A recoding stimulatory signal, downstream sequence important for recoding that contains repetitive elements. (purl.obolibrary.org/obo/SO_1001286)
# File lib/biointerchange/so.rb, line 13649 def self.three_prime_repeat_recoding_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001286') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001690)
# File lib/biointerchange/so.rb, line 10351 def self.three_prime_restriction_enzyme_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001690') end
A recoding stimulatory region, the stem-loop secondary structural element is downstream of the redefined region. (purl.obolibrary.org/obo/SO_1001279)
# File lib/biointerchange/so.rb, line 13607 def self.three_prime_stem_loop_structure return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1001279') end
A restriction enzyme recognition site that, when cleaved, results in 3 prime overhangs. (purl.obolibrary.org/obo/SO_0001976)
# File lib/biointerchange/so.rb, line 12065 def self.three_prime_sticky_end_restriction_enzyme_cleavage_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001976') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000421)
# File lib/biointerchange/so.rb, line 2841 def self.three_prime_terminal_inverted_repeat return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000421') end
An attribute to describe a gene when the 3’ region overlaps with another gene’s 3’ region. (purl.obolibrary.org/obo/SO_0000075)
# File lib/biointerchange/so.rb, line 767 def self.three_prime_three_prime_overlap return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000075') end
The 3-10 helix has 3 residues per turn with a translation of 2.0 angstroms (=0.2 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid three residues earlier. (purl.obolibrary.org/obo/SO_0001119)
# File lib/biointerchange/so.rb, line 6985 def self.three_ten_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001119') end
3_3_amino_3_carboxypropyl_uridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001353)
# File lib/biointerchange/so.rb, line 8383 def self.three_three_amino_three_carboxypropyl_uridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001353') end
3_2prime_O_dimethyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001375)
# File lib/biointerchange/so.rb, line 8515 def self.three_two_prime_O_dimethyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001375') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001445)
# File lib/biointerchange/so.rb, line 8929 def self.threonine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001445') end
A primary transcript encoding threonyl tRNA (SO:000270). (purl.obolibrary.org/obo/SO_0000227)
# File lib/biointerchange/so.rb, line 1683 def self.threonine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000227') end
A tRNA sequence that has a threonine anticodon, and a 3’ threonine binding region. (purl.obolibrary.org/obo/SO_0000270)
# File lib/biointerchange/so.rb, line 1941 def self.threonyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000270') end
A set of regions which overlap with minimal polymorphism to form a linear sequence. (purl.obolibrary.org/obo/SO_0000472)
# File lib/biointerchange/so.rb, line 3151 def self.tiling_path return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000472') end
A clone which is part of a tiling path. A tiling path is a set of sequencing substrates, typically clones, which have been selected in order to efficiently cover a region of the genome in preparation for sequencing and assembly. (purl.obolibrary.org/obo/SO_0000480)
# File lib/biointerchange/so.rb, line 3199 def self.tiling_path_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000480') end
A piece of sequence that makes up a tiling_path
(SO:0000472). (purl.obolibrary.org/obo/SO_0000474)
# File lib/biointerchange/so.rb, line 3163 def self.tiling_path_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000474') end
A tmRNA liberates a mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNAs genes have been found encoded in two parts. TmRNAs have been identified in eubacteria and some chloroplasts but are absent from archeal and Eukaryote nuclear genomes. (purl.obolibrary.org/obo/SO_0000584)
# File lib/biointerchange/so.rb, line 3827 def self.tmRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000584') end
The acceptor region of a two-piece tmRNA that when mature is charged at its 3’ end with alanine. The tmRNA gene undergoes circular permutation in some groups of bacteria; processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together. (purl.obolibrary.org/obo/SO_0000770)
# File lib/biointerchange/so.rb, line 4937 def self.tmRNA_acceptor_piece return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000770') end
The region of a two-piece tmRNA that bears the reading frame encoding the proteolysis tag. The tmRNA gene undergoes circular permutation in some groups of bacteria. Processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together. (purl.obolibrary.org/obo/SO_0000769)
# File lib/biointerchange/so.rb, line 4931 def self.tmRNA_coding_piece return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000769') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000659)
# File lib/biointerchange/so.rb, line 4277 def self.tmRNA_encoding return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000659') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001271)
# File lib/biointerchange/so.rb, line 7891 def self.tmRNA_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001271') end
A primary transcript encoding a tmRNA (SO:0000584). (purl.obolibrary.org/obo/SO_0000586)
# File lib/biointerchange/so.rb, line 3839 def self.tmRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000586') end
A region of a tmRNA. (purl.obolibrary.org/obo/SO_0000847)
# File lib/biointerchange/so.rb, line 5363 def self.tmRNA_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000847') end
A region that is defined according to its relations with other regions within the same sequence. (purl.obolibrary.org/obo/SO_0001412)
# File lib/biointerchange/so.rb, line 8737 def self.topologically_defined_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001412') end
Attributes added to describe the different kinds of replicon. SO
workshop, September 2006. (purl.obolibrary.org/obo/SO_0000986)
# File lib/biointerchange/so.rb, line 6191 def self.topology_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000986') end
The 3’ splice site of the acceptor primary transcript. (purl.obolibrary.org/obo/SO_0000706)
# File lib/biointerchange/so.rb, line 4559 def self.trans_splice_acceptor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000706') end
The 5’ five prime splice site region of the donor RNA
. (purl.obolibrary.org/obo/SO_0000707)
# File lib/biointerchange/so.rb, line 4565 def self.trans_splice_donor_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000707') end
The boundary between the spliced leader and the first exon of the mRNA. (purl.obolibrary.org/obo/SO_0001474)
# File lib/biointerchange/so.rb, line 9103 def self.trans_splice_junction return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001474') end
Primary transcript region bordering trans-splice junction. (purl.obolibrary.org/obo/SO_0001420)
# File lib/biointerchange/so.rb, line 8785 def self.trans_splice_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001420') end
An attribute describing transcript sequence that is created by splicing exons from diferent genes. (purl.obolibrary.org/obo/SO_0000870)
# File lib/biointerchange/so.rb, line 5501 def self.trans_spliced return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000870') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_from)
# File lib/biointerchange/so.rb, line 269 def self.trans_spliced_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_from') end
An mRNA that is trans-spliced. (purl.obolibrary.org/obo/SO_0000872)
# File lib/biointerchange/so.rb, line 5513 def self.trans_spliced_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000872') end
– No comment or description provided. – (purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_to)
# File lib/biointerchange/so.rb, line 275 def self.trans_spliced_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#trans_spliced_to') end
A transcript that is trans-spliced. (purl.obolibrary.org/obo/SO_0000479)
# File lib/biointerchange/so.rb, line 3193 def self.trans_spliced_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000479') end
A region defined by a set of transcribed sequences from the same gene or expressed pseudogene. (purl.obolibrary.org/obo/SO_0001457)
# File lib/biointerchange/so.rb, line 9001 def self.transcribed_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001457') end
An experimental region, defined by a tiling array experiment to be transcribed at some level. (purl.obolibrary.org/obo/SO_0001418)
# File lib/biointerchange/so.rb, line 8773 def self.transcribed_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001418') end
X is transcribed_from
Y if X is synthesized from template Y. (purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_from)
# File lib/biointerchange/so.rb, line 281 def self.transcribed_from return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_from') end
A region of sequence that is transcribed. This region may cover the transcript of a gene, it may emcompas the sequence covered by all of the transcripts of a alternately spliced gene, or it may cover the region transcribed by a polycistronic transcript. A gene may have 1 or more transcribed regions and a transcribed_region
may belong to one or more genes. (purl.obolibrary.org/obo/SO_0000502)
# File lib/biointerchange/so.rb, line 3331 def self.transcribed_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000502') end
Part of an rRNA transcription unit that is transcribed but discarded during maturation, not giving rise to any part of rRNA. (purl.obolibrary.org/obo/SO_0000638)
# File lib/biointerchange/so.rb, line 4151 def self.transcribed_spacer_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000638') end
Inverse of transcribed_from. (purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_to)
# File lib/biointerchange/so.rb, line 287 def self.transcribed_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#transcribed_to') end
An RNA
synthesized on a DNA
or RNA
template by an RNA
polymerase. (purl.obolibrary.org/obo/SO_0000673)
# File lib/biointerchange/so.rb, line 4361 def self.transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000673') end
A feature ablation whereby the deleted region includes a transcript feature. (purl.obolibrary.org/obo/SO_0001893)
# File lib/biointerchange/so.rb, line 11563 def self.transcript_ablation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001893') end
A feature amplification of a region containing a transcript. (purl.obolibrary.org/obo/SO_0001889)
# File lib/biointerchange/so.rb, line 11539 def self.transcript_amplification return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001889') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000237)
# File lib/biointerchange/so.rb, line 1743 def self.transcript_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000237') end
A transcript that is bound by a nucleic acid. (purl.obolibrary.org/obo/SO_0000278)
# File lib/biointerchange/so.rb, line 1989 def self.transcript_bound_by_nucleic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000278') end
A transcript that is bound by a protein. (purl.obolibrary.org/obo/SO_0000279)
# File lib/biointerchange/so.rb, line 1995 def self.transcript_bound_by_protein return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000279') end
The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa. (purl.obolibrary.org/obo/SO_0000597)
# File lib/biointerchange/so.rb, line 3905 def self.transcript_edited_by_U_insertion_deletion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000597') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000115)
# File lib/biointerchange/so.rb, line 1007 def self.transcript_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000115') end
A sequence variant which alters the functioning of a transcript with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001538)
# File lib/biointerchange/so.rb, line 9487 def self.transcript_function_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001538') end
A feature fusion where the deletion brings together transcript regions. (purl.obolibrary.org/obo/SO_0001886)
# File lib/biointerchange/so.rb, line 11521 def self.transcript_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001886') end
A sequence variant that affects the post transcriptional processing of a transcript with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001543)
# File lib/biointerchange/so.rb, line 9517 def self.transcript_processing_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001543') end
A region of a transcript. (purl.obolibrary.org/obo/SO_0000833)
# File lib/biointerchange/so.rb, line 5279 def self.transcript_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000833') end
A feature fusion where the deletion brings together a regulatory region and a transcript region. (purl.obolibrary.org/obo/SO_0001890)
# File lib/biointerchange/so.rb, line 11545 def self.transcript_regulatory_region_fusion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001890') end
A sequence variant within a transcript that changes the secondary structure of the RNA
product. (purl.obolibrary.org/obo/SO_0001596)
# File lib/biointerchange/so.rb, line 9817 def self.transcript_secondary_structure_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001596') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001579)
# File lib/biointerchange/so.rb, line 9733 def self.transcript_sequence_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001579') end
A variant that changes the stability of a transcript with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001546)
# File lib/biointerchange/so.rb, line 9535 def self.transcript_stability_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001546') end
A feature translocation where the region contains a transcript. (purl.obolibrary.org/obo/SO_0001883)
# File lib/biointerchange/so.rb, line 11503 def self.transcript_translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001883') end
A sequence variant that changes the structure of the transcript. (purl.obolibrary.org/obo/SO_0001576)
# File lib/biointerchange/so.rb, line 9715 def self.transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001576') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000117)
# File lib/biointerchange/so.rb, line 1019 def self.transcript_with_readthrough_stop_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000117') end
A transcript with a translational frameshift. (purl.obolibrary.org/obo/SO_0000118)
# File lib/biointerchange/so.rb, line 1025 def self.transcript_with_translational_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000118') end
The base where transcription ends. (purl.obolibrary.org/obo/SO_0000616)
# File lib/biointerchange/so.rb, line 4019 def self.transcription_end_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000616') end
A regulatory region that is involved in the control of the process of transcription. (purl.obolibrary.org/obo/SO_0001679)
# File lib/biointerchange/so.rb, line 10285 def self.transcription_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001679') end
A region defined by a cluster of experimentally determined transcription starting sites. (purl.obolibrary.org/obo/SO_0001915)
# File lib/biointerchange/so.rb, line 11695 def self.transcription_start_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001915') end
A variant that changes alters the transcription of a transcript with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001549)
# File lib/biointerchange/so.rb, line 9553 def self.transcription_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001549') end
A regulatory_region
that modulates the transcription of a gene or genes. (purl.obolibrary.org/obo/SO_0001055)
# File lib/biointerchange/so.rb, line 6613 def self.transcriptional_cis_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001055') end
Expressed in relatively constant amounts without regard to cellular environmental conditions such as the concentration of a particular substrate. (purl.obolibrary.org/obo/SO_0000124)
# File lib/biointerchange/so.rb, line 1061 def self.transcriptionally_constitutive return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000124') end
An inducer molecule is required for transcription to occur. (purl.obolibrary.org/obo/SO_0000125)
# File lib/biointerchange/so.rb, line 1067 def self.transcriptionally_induced return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000125') end
An attribute describing a gene that is regulated at transcription. (purl.obolibrary.org/obo/SO_0000123)
# File lib/biointerchange/so.rb, line 1055 def self.transcriptionally_regulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000123') end
A repressor molecule is required for transcription to stop. (purl.obolibrary.org/obo/SO_0000126)
# File lib/biointerchange/so.rb, line 1073 def self.transcriptionally_repressed return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000126') end
A transgene is a gene that has been transferred naturally or by any of a number of genetic engineering techniques from one organism to another. (purl.obolibrary.org/obo/SO_0000902)
# File lib/biointerchange/so.rb, line 5693 def self.transgene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000902') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000452)
# File lib/biointerchange/so.rb, line 3031 def self.transgene_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000452') end
Attribute describing sequence that has been integrated with foreign sequence. (purl.obolibrary.org/obo/SO_0000781)
# File lib/biointerchange/so.rb, line 5003 def self.transgenic return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000781') end
An insertion that derives from another organism, via the use of recombinant DNA
technology. (purl.obolibrary.org/obo/SO_0001218)
# File lib/biointerchange/so.rb, line 7579 def self.transgenic_insertion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001218') end
TE that has been modified in vitro, including insertion of DNA
derived from a source other than the originating TE. (purl.obolibrary.org/obo/SO_0000796)
# File lib/biointerchange/so.rb, line 5093 def self.transgenic_transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000796') end
The transit_peptide
is a short region at the N-terminus of the peptide that directs the protein to an organelle (chloroplast, mitochondrion, microbody or cyanelle). (purl.obolibrary.org/obo/SO_0000725)
# File lib/biointerchange/so.rb, line 4673 def self.transit_peptide return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000725') end
Change of a pyrimidine nucleotide, C or T, into an other pyrimidine nucleotide, or change of a purine nucleotide, A or G, into an other purine nucleotide. (purl.obolibrary.org/obo/SO_1000009)
# File lib/biointerchange/so.rb, line 12497 def self.transition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000009') end
A match against a translated sequence. (purl.obolibrary.org/obo/SO_0000181)
# File lib/biointerchange/so.rb, line 1407 def self.translated_nucleotide_match return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000181') end
Inverse of translation _of. (purl.obolibrary.org/obo/so_2_5_2.obo#translates_to)
# File lib/biointerchange/so.rb, line 293 def self.translates_to return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#translates_to') end
X is translation of Y if Y is translated by ribosome to create X. (purl.obolibrary.org/obo/so_2_5_2.obo#translation_of)
# File lib/biointerchange/so.rb, line 299 def self.translation_of return RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#translation_of') end
A regulatory region that is involved in the control of the process of translation. (purl.obolibrary.org/obo/SO_0001680)
# File lib/biointerchange/so.rb, line 10291 def self.translation_regulatory_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001680') end
The region of mRNA (not divisible by 3 bases) that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different. (purl.obolibrary.org/obo/SO_0001210)
# File lib/biointerchange/so.rb, line 7531 def self.translational_frameshift return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001210') end
A sequence variant that affects the functioning of a translational product with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001539)
# File lib/biointerchange/so.rb, line 9493 def self.translational_product_function_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001539') end
A functional variant that changes the translational product level with respect to a reference sequence. (purl.obolibrary.org/obo/SO_0001553)
# File lib/biointerchange/so.rb, line 9577 def self.translational_product_level_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001553') end
A sequence variant within the transcript that changes the structure of the translational product. (purl.obolibrary.org/obo/SO_0001598)
# File lib/biointerchange/so.rb, line 9829 def self.translational_product_structure_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001598') end
Recoding by frameshifting a particular site. (purl.obolibrary.org/obo/SO_0000887)
# File lib/biointerchange/so.rb, line 5603 def self.translationally_frameshifted return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000887') end
An attribute describing a gene that is regulated as it is translated. (purl.obolibrary.org/obo/SO_0000131)
# File lib/biointerchange/so.rb, line 1103 def self.translationally_regulated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000131') end
A gene that is translationally regulated. (purl.obolibrary.org/obo/SO_0000896)
# File lib/biointerchange/so.rb, line 5657 def self.translationally_regulated_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000896') end
To translocate a subsection of sequence. (purl.obolibrary.org/obo/SO_0000049)
# File lib/biointerchange/so.rb, line 603 def self.translocate return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000049') end
A region of nucleotide sequence that has translocated to a new position. (purl.obolibrary.org/obo/SO_0000199)
# File lib/biointerchange/so.rb, line 1515 def self.translocation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000199') end
The point within a chromosome where a translocation begins or ends. (purl.obolibrary.org/obo/SO_0001413)
# File lib/biointerchange/so.rb, line 8743 def self.translocation_breakpoint return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001413') end
A chromosomal translocation whereby the chromosomes carrying non-homologous centromeres may be recovered independently. These chromosomes are described as translocation elements. This occurs for some translocations, particularly but not exclusively, reciprocal translocations. (purl.obolibrary.org/obo/SO_0000686)
# File lib/biointerchange/so.rb, line 4439 def self.translocation_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000686') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001520)
# File lib/biointerchange/so.rb, line 9379 def self.translocaton_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001520') end
A region that traverses the lipid bilayer and adopts a helical secondary structure. (purl.obolibrary.org/obo/SO_0001812)
# File lib/biointerchange/so.rb, line 11077 def self.transmembrane_helix return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001812') end
Polypeptide region traversing the lipid bilayer. (purl.obolibrary.org/obo/SO_0001077)
# File lib/biointerchange/so.rb, line 6733 def self.transmembrane_polypeptide_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001077') end
A transposon or insertion sequence. An element that can insert in a variety of DNA
sequences. (purl.obolibrary.org/obo/SO_0000101)
# File lib/biointerchange/so.rb, line 923 def self.transposable_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000101') end
A CDS
that is part of a transposable element. (purl.obolibrary.org/obo/SO_0001896)
# File lib/biointerchange/so.rb, line 11581 def self.transposable_element_CDS return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001896') end
Added by KE Jan 2006 to capture the kinds of attributes of TEs (purl.obolibrary.org/obo/SO_0000780)
# File lib/biointerchange/so.rb, line 4997 def self.transposable_element_attribute return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000780') end
The region of sequence surrounding a transposable element. (purl.obolibrary.org/obo/SO_0000364)
# File lib/biointerchange/so.rb, line 2499 def self.transposable_element_flanking_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000364') end
A gene encoded within a transposable element. For example gag, int, env and pol are the transposable element genes of the TY element in yeast. (purl.obolibrary.org/obo/SO_0000111)
# File lib/biointerchange/so.rb, line 983 def self.transposable_element_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000111') end
The junction in a genome where a transposable_element
has inserted. (purl.obolibrary.org/obo/SO_0000368)
# File lib/biointerchange/so.rb, line 2523 def self.transposable_element_insertion_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000368') end
A pseudogene contained within a transposable element. (purl.obolibrary.org/obo/SO_0001897)
# File lib/biointerchange/so.rb, line 11587 def self.transposable_element_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001897') end
A portion of a transposon, interrupted by the insertion of another element. (purl.obolibrary.org/obo/SO_0001054)
# File lib/biointerchange/so.rb, line 6607 def self.transposon_fragment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001054') end
Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G, or vice versa. (purl.obolibrary.org/obo/SO_1000017)
# File lib/biointerchange/so.rb, line 12545 def self.transversion return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000017') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000291)
# File lib/biointerchange/so.rb, line 2067 def self.trinucleotide_repeat_microsatellite_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000291') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001440)
# File lib/biointerchange/so.rb, line 8899 def self.tryptophan return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001440') end
A primary transcript encoding tryptophanyl tRNA (SO:000271). (purl.obolibrary.org/obo/SO_0000228)
# File lib/biointerchange/so.rb, line 1689 def self.tryptophan_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000228') end
A tRNA sequence that has a tryptophan anticodon, and a 3’ tryptophan binding region. (purl.obolibrary.org/obo/SO_0000271)
# File lib/biointerchange/so.rb, line 1947 def self.tryptophanyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000271') end
An intron within an intron. Twintrons are group II or III introns, into which another group II or III intron has been transposed. (purl.obolibrary.org/obo/SO_0000406)
# File lib/biointerchange/so.rb, line 2751 def self.twintron return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000406') end
2_methyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001296)
# File lib/biointerchange/so.rb, line 8041 def self.two_methyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001296') end
2_methylthio_N6_cis_hydroxyisopentenyl_adenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001303)
# File lib/biointerchange/so.rb, line 8083 def self.two_methylthio_N6_cis_hydroxyisopentenyl_adenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001303') end
2_methylthio_N6_hydroxynorvalyl_carbamoyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001309)
# File lib/biointerchange/so.rb, line 8119 def self.two_methylthio_N6_hydroxynorvalyl_carbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001309') end
2_methylthio_N6_isopentenyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001301)
# File lib/biointerchange/so.rb, line 8071 def self.two_methylthio_N6_isopentenyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001301') end
2_methylthio_N6_methyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001299)
# File lib/biointerchange/so.rb, line 8059 def self.two_methylthio_N6_methyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001299') end
2_methylthio_N6_threonyl_carbamoyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001306)
# File lib/biointerchange/so.rb, line 8101 def self.two_methylthio_N6_threonyl_carbamoyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001306') end
2prime_O_methyladenosine is a modified adenosine. (purl.obolibrary.org/obo/SO_0001298)
# File lib/biointerchange/so.rb, line 8053 def self.two_prime_O_methyladenosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001298') end
2’-O-methylcytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001283)
# File lib/biointerchange/so.rb, line 7963 def self.two_prime_O_methylcytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001283') end
2prime_O_methylguanosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001327)
# File lib/biointerchange/so.rb, line 8227 def self.two_prime_O_methylguanosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001327') end
2’-O-methylinosine is a modified inosine. (purl.obolibrary.org/obo/SO_0001280)
# File lib/biointerchange/so.rb, line 7945 def self.two_prime_O_methylinosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001280') end
2prime_O_methylpseudouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001348)
# File lib/biointerchange/so.rb, line 8353 def self.two_prime_O_methylpseudouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001348') end
2prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001345)
# File lib/biointerchange/so.rb, line 8335 def self.two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001345') end
2prime_O_ribosyladenosine_phosphate is a modified adenosine. (purl.obolibrary.org/obo/SO_0001310)
# File lib/biointerchange/so.rb, line 8125 def self.two_prime_O_ribosyladenosine_phosphate return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001310') end
2prime_O_ribosylguanosine_phosphate is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001331)
# File lib/biointerchange/so.rb, line 8251 def self.two_prime_O_ribosylguanosine_phosphate return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001331') end
2_thio_2prime_O_methyluridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001352)
# File lib/biointerchange/so.rb, line 8377 def self.two_thio_two_prime_O_methyluridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001352') end
2-thiocytidine is a modified cytidine. (purl.obolibrary.org/obo/SO_0001284)
# File lib/biointerchange/so.rb, line 7969 def self.two_thiocytidine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001284') end
2_thiouridine is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001349)
# File lib/biointerchange/so.rb, line 8359 def self.two_thiouridine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001349') end
The recognition site is either palindromic, partially palindromic or an interrupted palindrome. Cleavage occurs within the recognition site. (purl.obolibrary.org/obo/SO_0000304)
# File lib/biointerchange/so.rb, line 2145 def self.type_II_enzyme_restriction_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000304') end
The recognition site is bipartite and interrupted. (purl.obolibrary.org/obo/SO_0000284)
# File lib/biointerchange/so.rb, line 2025 def self.type_I_enzyme_restriction_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000284') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001446)
# File lib/biointerchange/so.rb, line 8935 def self.tyrosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001446') end
A primary transcript encoding tyrosyl tRNA (SO:000272). (purl.obolibrary.org/obo/SO_0000229)
# File lib/biointerchange/so.rb, line 1695 def self.tyrosine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000229') end
A tRNA sequence that has a tyrosine anticodon, and a 3’ tyrosine binding region. (purl.obolibrary.org/obo/SO_0000272)
# File lib/biointerchange/so.rb, line 1953 def self.tyrosyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000272') end
An ordered and oriented set of scaffolds based on somewhat weaker sets of inferential evidence such as one set of mate pair reads together with supporting evidence from ESTs or location of markers from SNP
or microsatellite maps, or cytogenetic localization of contained markers. (purl.obolibrary.org/obo/SO_0000719)
# File lib/biointerchange/so.rb, line 4637 def self.ultracontig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000719') end
A supercontig that is not been assigned to any ultracontig during a genome assembly project. (purl.obolibrary.org/obo/SO_0001875)
# File lib/biointerchange/so.rb, line 11455 def self.unassigned_supercontig return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001875') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_1000170)
# File lib/biointerchange/so.rb, line 13313 def self.uncharacterised_chromosomal_mutation return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000170') end
Undermodified_hydroxywybutosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001335)
# File lib/biointerchange/so.rb, line 8275 def self.undermodified_hydroxywybutosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001335') end
The region of an edited transcript that will not be edited. (purl.obolibrary.org/obo/SO_0000607)
# File lib/biointerchange/so.rb, line 3965 def self.unedited_region return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000607') end
An attribute describing a pseudogene that was created by tandem duplication and unequal crossing over during recombination. (purl.obolibrary.org/obo/SO_0000901)
# File lib/biointerchange/so.rb, line 5687 def self.unequally_crossed_over return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000901') end
A kind of transcribed_cluster
defined by a set of transcribed sequences from the a unique gene. (purl.obolibrary.org/obo/SO_0001458)
# File lib/biointerchange/so.rb, line 9007 def self.unigene_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001458') end
An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. (purl.obolibrary.org/obo/SO_1000152)
# File lib/biointerchange/so.rb, line 13247 def self.uninverted_insertional_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000152') end
An interchromosomal transition where the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. (purl.obolibrary.org/obo/SO_1000157)
# File lib/biointerchange/so.rb, line 13277 def self.uninverted_interchromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000157') end
An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments. (purl.obolibrary.org/obo/SO_1000159)
# File lib/biointerchange/so.rb, line 13289 def self.uninverted_intrachromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000159') end
A physical quality which inheres to the variant by virtue of the number instances of the variant within a population. (purl.obolibrary.org/obo/SO_0001764)
# File lib/biointerchange/so.rb, line 10795 def self.unique_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001764') end
A pseudogene, deactivated from original state by mutation, fixed in a population. (purl.obolibrary.org/obo/SO_0001759)
# File lib/biointerchange/so.rb, line 10765 def self.unitary_pseudogene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001759') end
An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. (purl.obolibrary.org/obo/SO_1000160)
# File lib/biointerchange/so.rb, line 13295 def self.unoriented_insertional_duplication return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000160') end
An interchromosomal transposition whereby a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. (purl.obolibrary.org/obo/SO_1000161)
# File lib/biointerchange/so.rb, line 13301 def self.unoriented_interchromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000161') end
An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded. (purl.obolibrary.org/obo/SO_1000162)
# File lib/biointerchange/so.rb, line 13307 def self.unoriented_intrachromosomal_transposition return RDF::URI.new('http://purl.obolibrary.org/obo/SO_1000162') end
The untranslated sequence separating the ‘cistrons’ of multicistronic mRNA. (purl.obolibrary.org/obo/SO_0000242)
# File lib/biointerchange/so.rb, line 1773 def self.untranslated_region_polycistronic_mRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000242') end
A start codon upstream of the ORF
. (purl.obolibrary.org/obo/SO_0000630)
# File lib/biointerchange/so.rb, line 4103 def self.upstream_AUG_codon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000630') end
A sequence variant located 5’ of a gene. (purl.obolibrary.org/obo/SO_0001631)
# File lib/biointerchange/so.rb, line 10021 def self.upstream_gene_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001631') end
A feature variant, where the alteration occurs upstream of the transcript TSS
. (purl.obolibrary.org/obo/SO_0001986)
# File lib/biointerchange/so.rb, line 12119 def self.upstream_transcript_variant return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001986') end
Uridine_5_oxyacetic_acid is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001356)
# File lib/biointerchange/so.rb, line 8401 def self.uridine_five_oxyacetic_acid return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001356') end
Uridine_5_oxyacetic_acid_methyl_ester is a modified uridine base feature. (purl.obolibrary.org/obo/SO_0001357)
# File lib/biointerchange/so.rb, line 8407 def self.uridine_five_oxyacetic_acid_methyl_ester return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001357') end
A polypeptide region that targets a polypeptide to the vacuole. (purl.obolibrary.org/obo/SO_0001813)
# File lib/biointerchange/so.rb, line 11083 def self.vacuolar_sorting_signal return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001813') end
An attribute to describe a feature that has been proven. (purl.obolibrary.org/obo/SO_0000789)
# File lib/biointerchange/so.rb, line 5051 def self.validated return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000789') end
A cDNA clone that has been validated. (purl.obolibrary.org/obo/SO_0000808)
# File lib/biointerchange/so.rb, line 5141 def self.validated_cDNA_clone return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000808') end
A place holder for a cross product with chebi. (purl.obolibrary.org/obo/SO_0001436)
# File lib/biointerchange/so.rb, line 8875 def self.valine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001436') end
A primary transcript encoding valyl tRNA (SO:000273). (purl.obolibrary.org/obo/SO_0000230)
# File lib/biointerchange/so.rb, line 1701 def self.valine_tRNA_primary_transcript return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000230') end
A tRNA sequence that has a valine anticodon, and a 3’ valine binding region. (purl.obolibrary.org/obo/SO_0000273)
# File lib/biointerchange/so.rb, line 1959 def self.valyl_tRNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000273') end
A collection of one or more sequences of an individual. (purl.obolibrary.org/obo/SO_0001507)
# File lib/biointerchange/so.rb, line 9301 def self.variant_collection return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001507') end
A physical quality which inheres to the variant by virtue of the number instances of the variant within a population. (purl.obolibrary.org/obo/SO_0001763)
# File lib/biointerchange/so.rb, line 10789 def self.variant_frequency return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001763') end
A collection of sequences (often chromosomes) of an individual. (purl.obolibrary.org/obo/SO_0001506)
# File lib/biointerchange/so.rb, line 9295 def self.variant_genome return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001506') end
Either:
A' is a variant (mutation) of A = definition every instance of A' is either an immediate mutation of some instance of A, or there is a chain of immediate mutation processes linking A' to some instance of A. (http://purl.obolibrary.org/obo/so_2_5_2.obo#variant_of)
Or:
A' is a variant (mutation) of A = definition every instance of A' is either an immediate mutation of some instance of A, or there is a chain of immediate mutation processes linking A' to some instance of A. (http://purl.obolibrary.org/obo/anonymous#variant_of)
# File lib/biointerchange/so.rb, line 309 def self.variant_of return [ RDF::URI.new('http://purl.obolibrary.org/obo/so_2_5_2.obo#variant_of'), RDF::URI.new('http://purl.obolibrary.org/obo/anonymous#variant_of') ] end
A quality inhering in a variant by virtue of its origin. (purl.obolibrary.org/obo/SO_0001762)
# File lib/biointerchange/so.rb, line 10783 def self.variant_origin return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001762') end
A quality inhering in a variant by virtue of its phenotype. (purl.obolibrary.org/obo/SO_0001769)
# File lib/biointerchange/so.rb, line 10825 def self.variant_phenotype return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001769') end
A dependent entity that inheres in a bearer, a sequence variant. (purl.obolibrary.org/obo/SO_0001761)
# File lib/biointerchange/so.rb, line 10777 def self.variant_quality return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001761') end
A family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA
molecules. It has been suggested that the vault complex is involved in drug resistance. (purl.obolibrary.org/obo/SO_0000404)
# File lib/biointerchange/so.rb, line 2739 def self.vault_RNA return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000404') end
A replicon that has been modified to act as a vector for foreign sequence. (purl.obolibrary.org/obo/SO_0000440)
# File lib/biointerchange/so.rb, line 2959 def self.vector_replicon return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000440') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000937)
# File lib/biointerchange/so.rb, line 5903 def self.vertebrate_immune_system_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000937') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000301)
# File lib/biointerchange/so.rb, line 2127 def self.vertebrate_immune_system_gene_recombination_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000301') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000939)
# File lib/biointerchange/so.rb, line 5915 def self.vertebrate_immune_system_gene_recombination_signal_feature return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000939') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000563)
# File lib/biointerchange/so.rb, line 3701 def self.vertebrate_immune_system_gene_recombination_spacer return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000563') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000482)
# File lib/biointerchange/so.rb, line 3211 def self.vertebrate_immunoglobulin_T_cell_receptor_gene_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000482') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000938)
# File lib/biointerchange/so.rb, line 5909 def self.vertebrate_immunoglobulin_T_cell_receptor_rearranged_gene_cluster return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000938') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0000936)
# File lib/biointerchange/so.rb, line 5897 def self.vertebrate_immunoglobulin_T_cell_receptor_rearranged_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000936') end
I am using the term segment instead of gene here to avoid confusion with the region ‘gene’. (purl.obolibrary.org/obo/SO_0000460)
# File lib/biointerchange/so.rb, line 3079 def self.vertebrate_immunoglobulin_T_cell_receptor_segment return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000460') end
A continuous piece of sequence similar to the ‘virtual contig’ concept of the Ensembl database. (purl.obolibrary.org/obo/SO_0000499)
# File lib/biointerchange/so.rb, line 3313 def self.virtual_sequence return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000499') end
The status of whole genome sequence. (purl.obolibrary.org/obo/SO_0001499)
# File lib/biointerchange/so.rb, line 9253 def self.whole_genome_sequence_status return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001499') end
An attribute describing sequence with the genotype found in nature and/or standard laboratory stock. (purl.obolibrary.org/obo/SO_0000817)
# File lib/biointerchange/so.rb, line 5195 def self.wild_type return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000817') end
A gene that rescues. (purl.obolibrary.org/obo/SO_0000818)
# File lib/biointerchange/so.rb, line 5201 def self.wild_type_rescue_gene return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0000818') end
Returns only those URIs that fall under a designated parent URI.
uris
-
Set of URIs that are tested whether they have the given parent URI.
parent
-
Parent URI.
# File lib/biointerchange/so.rb, line 20555 def self.with_parent(uris, parent) return uris.select { |uri| has_parent?(uri, parent) } end
A type of non-canonical base pairing, most commonly between G and U, which is important for the secondary structure of RNAs. It has similar thermodynamic stability to the Watson-Crick pairing. Wobble base pairs only have two hydrogen bonds. Other wobble base pair possibilities are I-A, I-U and I-C. (purl.obolibrary.org/obo/SO_0001015)
# File lib/biointerchange/so.rb, line 6365 def self.wobble_base_pair return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001015') end
Wybutosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001332)
# File lib/biointerchange/so.rb, line 8257 def self.wybutosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001332') end
Wyosine is a modified guanosine base feature. (purl.obolibrary.org/obo/SO_0001336)
# File lib/biointerchange/so.rb, line 8281 def self.wyosine return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001336') end
– No comment or description provided. – (purl.obolibrary.org/obo/SO_0001971)
# File lib/biointerchange/so.rb, line 12035 def self.zinc_finger_binding_site return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0001971') end
A promoter element that has the consensus sequence GNMGATC, and is found in promoters of genes repressed in the presence of zinc. (purl.obolibrary.org/obo/SO_0002006)
# File lib/biointerchange/so.rb, line 12239 def self.zinc_repressed_element return RDF::URI.new('http://purl.obolibrary.org/obo/SO_0002006') end