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SEQUENCE ONTOLOGY - ANNOTATIONS

The Sequence Types and Features Ontology (SO) is downloaded weekly from the SourceForge CVS repository at http://song.cvs.sourceforge.net/viewvc/song/ontology/. For more information about this ontology, see the Sequence Ontology Home Page at http://www.sequenceontology.org/.

Term:stop_lost
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Accession:SO:0001578 term browser browse the term
Definition:A sequence variant where at least one base of the terminator codon (stop) is changed, resulting in an elongated transcript.
Comment:EBI term: Stop lost - In coding sequence, resulting in the loss of a stop codon.
Synonyms:exact_synonym: ANNOVAR:stoploss;   Jannovar:stop_lost;   Seattleseq:stop-lost;   VAAST:stop_lost;   VAT:removedStop;   VEP:stop_lost;   snpEff:STOP_LOST;   stop codon lost;   stop lost
 related_synonym: Seattleseq:stop-lost-near-splice
 xref: http://snp.gs.washington.edu/SeattleSeqAnnotation137/HelpHowToUse.jsp "Seattleseq";   http://snpeff.sourceforge.net/SnpEff_manual.html;   http://vat.gersteinlab.org/formats.php "VAT";   http:www.ensembl.org/info/genome/variation/predicted_data.html#consequences



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Term paths to the root
Path 1
Term Annotations click to browse term
  SO ontology 0
    sequence_variant 0
      structural_variant 0
        feature_variant 0
          feature_elongation 0
            stop_lost 0
Path 2
Term Annotations click to browse term
  SO ontology 0
    sequence_variant 0
      structural_variant 0
        feature_variant 0
          gene_variant 0
            transcript_variant 0
              coding_transcript_variant 0
                coding_sequence_variant 0
                  protein_altering_variant 0
                    inframe_variant 0
                      nonsynonymous_variant 0
                        stop_lost 0
paths to the root