Selected article for: "overlap gene and stop codon"
Author: Tcherepanov, Vasily; Ehlers, Angelika; Upton, Chris
Title: Genome Annotation Transfer Utility (GATU): rapid annotation of viral genomes using a closely related reference genome
  • Document date: 2006_6_13
    • ID: 1e2kkhht_14
    Snippet: Since it is possible that the reference genome may have not been fully or correctly annotated, or that the target genome contains ORFs that are not present in the reference genome, GATU also finds all possible target genome ORFs. These are defined simply as any nucleotide sequence starting with ATG and ending with a STOP codon; all those that have not already been matched to a reference genome ORF are displayed as Unassigned-ORFs. The user may en.....
    Document: Since it is possible that the reference genome may have not been fully or correctly annotated, or that the target genome contains ORFs that are not present in the reference genome, GATU also finds all possible target genome ORFs. These are defined simply as any nucleotide sequence starting with ATG and ending with a STOP codon; all those that have not already been matched to a reference genome ORF are displayed as Unassigned-ORFs. The user may enter the minimum required length for these ORFs (default is set to 180 nt) and can also choose not to show Unassigned-ORFs that overlap significantly with regions that contain significant gene matches in the reference genome. BLAST searches of the Unassigned-ORFs against the NCBI database can be run automatically or manually, as required.

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