Jun 8, 2010

Prevalence of alternative splicing choices in Arabidopsis thaliana

BMC Plant Biology
Adam C EnglishAnn E Loraine

Abstract

Around 14% of protein-coding genes of Arabidopsis thaliana genes from the TAIR9 genome release are annotated as producing multiple transcript variants through alternative splicing. However, for most alternatively spliced genes in Arabidopsis, the relative expression level of individual splicing variants is unknown. We investigated prevalence of alternative splicing (AS) events in Arabidopsis thaliana using ESTs. We found that for most AS events with ample EST coverage, the majority of overlapping ESTs strongly supported one major splicing choice, with less than 10% of ESTs supporting the minor form. Analysis of ESTs also revealed a small but noteworthy subset of genes for which alternative choices appeared with about equal prevalence, suggesting that for these genes the variant splicing forms co-occur in the same cell types. Of the AS events in which both forms were about equally prevalent, more than 80% affected untranslated regions or involved small changes to the encoded protein sequence. Currently available evidence from ESTs indicates that alternative splicing in Arabidopsis occurs and affects many genes, but for most genes with documented alternative splicing, one AS choice predominates. To aid investigation of the role A...Continue Reading

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Citations

Mentioned in this Paper

Nested Transcripts
CIRBP gene
Genes, Plant
Untranslated Regions
Exons
Genome
Arabidopsis
Caenorhabditis elegans
Genes, Spliced
Plant Ovule

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