NDLI: Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs

Content Provider	PubMed Central
Author	Takeda, Jun-ichi Suzuki, Yutaka Sakate, Ryuichi Sato, Yoshiharu Seki, Masahide Irie, Takuma Takeuchi, Nono Ueda, Takuya Nakao, Mitsuteru Sugano, Sumio Gojobori, Takashi Imanishi, Tadashi
Copyright Year	2008
Abstract	Using full-length cDNA sequences, we compared alternative splicing (AS) in humans and mice. The alignment of the human and mouse genomes showed that 86% of 199 426 total exons in human AS variants were conserved in the mouse genome. Of the 20 392 total human AS variants, however, 59% consisted of all conserved exons. Comparing AS patterns between human and mouse transcripts revealed that only 431 transcripts from 189 loci were perfectly conserved AS variants. To exclude the possibility that the full-length human cDNAs used in the present study, especially those with retained introns, were cloning artefacts or prematurely spliced transcripts, we experimentally validated 34 such cases. Our results indicate that even retained-intron type transcripts are typically expressed in a highly controlled manner and interact with translating ribosomes. We found non-conserved AS exons to be predominantly outside the coding sequences (CDSs). This suggests that non-conserved exons in the CDSs of transcripts cause functional constraint. These findings should enhance our understanding of the relationship between AS and species specificity of human genes.
Related Links	http://dx.doi.org/10.1093/nar/gkn677
Ending Page	6395
Page Count	10
Starting Page	6386
File Format	PDF
ISSN	03051048
e-ISSN	13624962
Journal	Nucleic Acids Research
Issue Number	20
Volume Number	36
Language	English
Publisher	Oxford University Press
Publisher Date	2008-11-01
Access Restriction	Open
Rights Holder	Oxford University Press
Subject Keyword	Genetics Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Genetics

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