AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs | Zendy

А. В. Кочетов | Zendy; Jens Allmer | Zendy; Alexandra I. Klimenko | Zendy; Б. С. Зураев | Zendy; Yu. G. Matushkin | Zendy; С. А. Лашин | Zendy

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AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs

Author(s) -

А. В. Кочетов,

Jens Allmer,

Alexandra I. Klimenko,

Б. С. Зураев,

Yu. G. Matushkin,

С. А. Лашин

Publication year - 2016

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btw736

Subject(s) - open reading frame , gene isoform , messenger rna , biology , computer science , eukaryotic translation , java , computational biology , gene , translation (biology) , genetics , programming language , peptide sequence

Protein synthesis is not a straight forward process and one gene locus can produce many isoforms, for example, by starting mRNA translation from alternative start sites. altORF evaluator (altORFev) predicts alternative open reading frames within eukaryotic mRNA translated by a linear scanning mechanism and its modifications (leaky scanning and reinitiation). The program reveals the efficiently translated altORFs recognized by the majority of 40S ribosomal subunits landing on the 5'-end of an mRNA. This information aids to reveal the functions of eukaryotic genes connected to synthesis of either unknown isoforms of annotated proteins or new unrelated polypeptides.

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