Computational analysis of stop codon readthrough in D.melanogaster

Misaki Sato, Hitomi Umeki, Rintaro Sato, Akio Kanai, Masaru Tomita

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Motivation: Readthrough is an unusual process in which a stop codon is misread or skipped. Recently it has been shown that some translation is regulated by the readthrough reactions although the complete mechanism is not clear. Therefore, the discovery of 'readthrough genes' is important for further investigation of their cellular roles, which may provide additional insights into the mechanism of translational regulation. Results: We constructed a system that lists candidates of readthrough genes based on the existence of a 'protein motif' at the 3′ untranslated region (UTR). Using this system, we extracted 85 candidates from 4082 nucleic acid sequences of Drosophila melanogaster in GenBank database. The sequences of these candidates had a slightly more stable secondary structure and different base preferences compared to the non-candidates. As these features are known to have an effect on readthrough events, we would like to suggest that these candidates contain actual readthrough genes.

Original languageEnglish
Pages (from-to)1371-1380
Number of pages10
JournalBioinformatics
Volume19
Issue number11
DOIs
Publication statusPublished - 2003 Jul 22

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Terminator Codon
Computational Analysis
Genes
Gene
Amino Acid Motifs
Nucleic Acid Databases
Genetic Association Studies
3' Untranslated Regions
Nucleic acid sequences
Drosophila melanogaster
Nucleic Acids
Drosophilidae
Databases
Secondary Structure
Proteins
Protein

ASJC Scopus subject areas

  • Clinical Biochemistry
  • Computer Science Applications
  • Computational Theory and Mathematics

Cite this

Computational analysis of stop codon readthrough in D.melanogaster. / Sato, Misaki; Umeki, Hitomi; Sato, Rintaro; Kanai, Akio; Tomita, Masaru.

In: Bioinformatics, Vol. 19, No. 11, 22.07.2003, p. 1371-1380.

Research output: Contribution to journalArticle

Sato, Misaki ; Umeki, Hitomi ; Sato, Rintaro ; Kanai, Akio ; Tomita, Masaru. / Computational analysis of stop codon readthrough in D.melanogaster. In: Bioinformatics. 2003 ; Vol. 19, No. 11. pp. 1371-1380.
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