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RNA (2003), 9:637-639. Published by Cold Spring Harbor Laboratory Press. Copyright © 2003 RNA Society

LETTER TO THE EDITOR

The effect of nonsense codons on splicing: A genomic analysis

XIANG ZHANG, JAMES LEE and LAWRENCE A. CHASIN

Department of Biological Sciences, Columbia University, New York, NY 10027, USA

Reprint requests to: Lawrence Chasin, Columbia University, 912 Fairchild–Mail Code 2433, 1212 Amsterdam Avenue, New York, NY 10027, USA; e-mail: lac2{at}columbia.edu.

The phenomenon of nonsense-associated altered splicing raises the possibility that the recognition of in-frame nonsense codons is used generally for exon identification during pre-mRNA splicing. However, nonsense codon frequencies in pseudo exons and in regions flanking 5' splice sites are no greater than that expected by chance, arguing against the widespread use of this strategy as a means of rejecting potential splice sites.

Keywords: NAS; nonsense; pre-mRNA splicing; exon definition; latent splice sites; pseudo exons; exon skipping


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