A reassessment of the translation initiation codon in vertebrates

Suraj Peri; Akhilesh Pandey

doi:10.1016/S0168-9525(01)02493-3

A reassessment of the translation initiation codon in vertebrates

Suraj Peri, Akhilesh Pandey

Laboratory Medicine and Pathology

Research output: Contribution to journal › Short survey › peer-review

88 Scopus citations

Abstract

More than two decades ago Marilyn Kozak proposed the scanning model of translation initiation, whereby translation is initiated at the first AUG codon that is in a particular context. In this article, we re-examine the context of initiator codons using a large dataset of curated human transcripts. We find that more than 40% of transcripts contain AUG codons upstream of the actual start codon and that most authentic AUGs contain three or more mismatches from the consensus sequence, CCACCaugG. Also, in a large fraction of transcripts, the sequences surrounding the initiator codon deviate more from the consensus than those surrounding upstream AUGs, indicating that translation initiation from downstream AUGs is more common than generally believed.

Original language	English (US)
Pages (from-to)	685-687
Number of pages	3
Journal	Trends in Genetics
Volume	17
Issue number	12
DOIs	https://doi.org/10.1016/S0168-9525(01)02493-3
State	Published - Dec 1 2001

ASJC Scopus subject areas

Genetics

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10.1016/S0168-9525(01)02493-3

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title = "A reassessment of the translation initiation codon in vertebrates",

abstract = "More than two decades ago Marilyn Kozak proposed the scanning model of translation initiation, whereby translation is initiated at the first AUG codon that is in a particular context. In this article, we re-examine the context of initiator codons using a large dataset of curated human transcripts. We find that more than 40% of transcripts contain AUG codons upstream of the actual start codon and that most authentic AUGs contain three or more mismatches from the consensus sequence, CCACCaugG. Also, in a large fraction of transcripts, the sequences surrounding the initiator codon deviate more from the consensus than those surrounding upstream AUGs, indicating that translation initiation from downstream AUGs is more common than generally believed.",

author = "Suraj Peri and Akhilesh Pandey",

note = "Funding Information: Work at the Center for Experimental Bioinformatics is supported by a generous grant from the Danish National Research Foundation. A.P. is supported by a Howard Temin Award (CA75447) from the NCI, National Institutes of Health. A.P. thanks Harvey Lodish and Matthias Mann for their support. S.P. has a grant from the Plasmid Foundation, Denmark, and acknowledges M. Srihari (M.S. University of Baroda) for helpful discussions and B.B. Chattoo for his encouragement.",

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N2 - More than two decades ago Marilyn Kozak proposed the scanning model of translation initiation, whereby translation is initiated at the first AUG codon that is in a particular context. In this article, we re-examine the context of initiator codons using a large dataset of curated human transcripts. We find that more than 40% of transcripts contain AUG codons upstream of the actual start codon and that most authentic AUGs contain three or more mismatches from the consensus sequence, CCACCaugG. Also, in a large fraction of transcripts, the sequences surrounding the initiator codon deviate more from the consensus than those surrounding upstream AUGs, indicating that translation initiation from downstream AUGs is more common than generally believed.

AB - More than two decades ago Marilyn Kozak proposed the scanning model of translation initiation, whereby translation is initiated at the first AUG codon that is in a particular context. In this article, we re-examine the context of initiator codons using a large dataset of curated human transcripts. We find that more than 40% of transcripts contain AUG codons upstream of the actual start codon and that most authentic AUGs contain three or more mismatches from the consensus sequence, CCACCaugG. Also, in a large fraction of transcripts, the sequences surrounding the initiator codon deviate more from the consensus than those surrounding upstream AUGs, indicating that translation initiation from downstream AUGs is more common than generally believed.

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A reassessment of the translation initiation codon in vertebrates

Abstract

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