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Codon EvolutionMechanisms and Models$
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Gina M. Cannarozzi and Adrian Schneider

Print publication date: 2012

Print ISBN-13: 9780199601165

Published to Oxford Scholarship Online: May 2015

DOI: 10.1093/acprof:osobl/9780199601165.001.0001

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Detection and analysis of conservation at synonymous sites

Detection and analysis of conservation at synonymous sites

Chapter:
(p.218) Chapter 14 Detection and analysis of conservation at synonymous sites
Source:
Codon Evolution
Author(s):

Nimrod D. Rubinstein

Tal Pupko

Publisher:
Oxford University Press
DOI:10.1093/acprof:osobl/9780199601165.003.0014

This chapter describes several causes of codon usage bias, namely translational selection, mRNA structure, overlapping genes, and splicing signals. It provides an overview of the implications of these factors specifically to the detection and analysis of conservation at synonymous sites. It discusses various codon-based evolutionary models that have recently been developed and their application to the detection of conserved synonymous sites.

Keywords:   codon usage bias, synonymous sites, conservation, translational selection, mRNA structure, overlapping genes, splicing signals, codon models

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