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Molecular and Cellular Biology
Article . 2005 . Peer-reviewed
License: ASM Journals Non-Commercial TDM
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Exon Inclusion Is Dependent on Predictable Exonic Splicing Enhancers

Authors: Lawrence A. Chasin; Thaned Kangsamaksin; Joydeep K. Banerjee; Mann S. P. Chao; Xiang Zhang;

Exon Inclusion Is Dependent on Predictable Exonic Splicing Enhancers

Abstract

We have previously formulated a list of approximately 2,000 RNA octamers as putative exonic splicing enhancers (PESEs) based on a statistical comparison of human exonic and nonexonic sequences (X. H. Zhang and L. A. Chasin, Genes Dev. 18:1241-1250, 2004). When inserted into a poorly spliced test exon, all eight tested octamers stimulated splicing, a result consistent with their identification as exonic splicing enhancers (ESEs). Here we present a much more stringent test of the validity of this list of PESEs. Twenty-two naturally occurring examples of nonoverlapping PESEs or PESE clusters were identified in six mammalian exons; five of the six exons tested are constitutively spliced. Each of the 22 individual PESEs or PESE clusters was disrupted by site-directed mutagenesis, usually by a single-base substitution. Eighteen of the 22 disruptions (82%) resulted in decreased splicing efficiency. In contrast, 24 control mutations had little or no effect on splicing. This high rate of success suggests that most PESEs function as ESEs in their natural context. Like most exons, these exons contain several PESEs. Since knocking out any one of several could produce a severalfold decrease in splicing efficiency, we conclude that there is little redundancy among ESEs in an exon and that they must work in concert to optimize splicing.

Related Organizations
Keywords

Base Sequence, Dose-Response Relationship, Drug, Models, Genetic, RNA Splicing, Molecular Sequence Data, Exons, Polymerase Chain Reaction, Cell Line, Alternative Splicing, Enhancer Elements, Genetic, Phenotype, Gene Expression Regulation, Genetic Techniques, Mutation, Mutagenesis, Site-Directed, RNA Precursors, Humans, RNA, RNA, Messenger

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
100
Top 10%
Top 10%
Top 10%
bronze