view release on metacpan or  search on metacpan

t/data/so.obo  view on Meta::CPAN

is_a: SO:0000163 ! splice_donor_site

[Term]
id: SO:0000708
name: SL1_acceptor_site
is_a: SO:0000706 ! trans_splice_acceptor_site

[Term]
id: SO:0000709
name: SL2_acceptor_site
is_a: SO:0000706 ! trans_splice_acceptor_site

[Term]
id: SO:0000710
name: gene_with_stop_codon_redefined_as_selenocysteine
is_a: SO:0000697 ! gene_with_stop_codon_read_through

[Term]
id: SO:0000711
name: gene_with_mRNA_recoded_by_translational_bypass
is_a: SO:0000693 ! gene_with_recoded_mRNA

[Term]
id: SO:0000712
name: gene_with_transcript_with_translational_frameshift
is_a: SO:0000693 ! gene_with_recoded_mRNA

[Term]
id: SO:0000713
name: DNA_motif
is_a: SO:0000714 ! nucleotide_motif

[Term]
id: SO:0000714
name: nucleotide_motif
def: "A region of nucleotide sequence corresponding to a known motif." [SO:ke]
subset: SOFA
is_a: SO:0000001 ! region

[Term]
id: SO:0000715
name: RNA_motif
is_a: SO:0000714 ! nucleotide_motif

[Term]
id: SO:0000716
name: dicistronic_mRNA
synonym: "dicistronic_processed_transcript" RELATED []
is_a: SO:0000079 ! dicistronic_transcript

[Term]
id: SO:0000717
name: reading_frame
def: "A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It does not contain the start or stop codon." [SO:rb]
comment: This term was added after a request by SGD.nAgust 2004. Modified after SO meeting in Cambridge to not include start or stop.
subset: SOFA
is_a: SO:0000001 ! region

[Term]
id: SO:0000718
name: blocked_reading_frame
def: "A reading_frame that is interupted by one or more stop codons; usually identified through intergenomic sequence comparisons." [SO:rb]
comment: Term requested by Rama from SGD
is_a: SO:0000717 ! reading_frame

[Term]
id: SO:0000719
name: ultracontig
def: "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...
subset: SOFA
is_a: SO:0000353 ! assembly

[Term]
id: SO:0000720
name: foreign_transposable_element
comment: requested by Michael on 19 Nov 2004
is_a: SO:0000101 ! transposable_element

[Term]
id: SO:0000721
name: gene_with_dicistronic_primary_transcript
comment: Requested by Michael, 19 nov 2004
is_a: SO:0000692 ! gene_with_dicistronic_transcript

[Term]
id: SO:0000722
name: gene_with_dicistronic_mRNA
comment: Requested by MA nov 19 2004
synonym: "gene_with_dicistronic_processed_transcript" RELATED []
is_a: SO:0000692 ! gene_with_dicistronic_transcript

[Term]
id: SO:0000723
name: iDNA
def: "Genomic sequence removed from the genome, as a normal event, by a process of recombination." [SO:ma]
synonym: "intervening DNA" RELATED []
is_a: SO:0000298 ! recombination_feature

[Term]
id: SO:0000724
name: origin_of_transfer
def: "A region of a DNA molecule whre transfer is initiated during the process of conjugation or mobilization." [http:http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html#line_types]
subset: SOFA
synonym: "oriT" RELATED []
is_a: SO:0000001 ! region

[Term]
id: SO:0000725
name: transit_peptide
def: "The coding sequence for an N-terminal domain of a nuclear-encoded organellar protein: this domain is involved in post translational import of the protein into the organelle." [http:http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_...
comment: Added to bring SO inline with the embl ddbj genbank feature table.
subset: SOFA
relationship: part_of SO:0000104 ! polypeptide

[Term]
id: SO:0000726
name: repeat_unit
def: "A single repeat element." [http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html#line_types]
comment: Added to comply with the feature table.
is_a: SO:0000657 ! repeat_region