NDLI: Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56 419 completely sequenced and manually annotated full-length cDNAs

Content Provider	PubMed Central
Author	Takeda, Jun-ichi Suzuki, Yutaka Nakao, Mitsuteru Barrero, Roberto A. Koyanagi, Kanako O. Jin, Lihua Motono, Chie Hata, Hiroko Isogai, Takao Nagai, Keiichi Otsuki, Tetsuji Kuryshev, Vladimir Shionyu, Masafumi Yura, Kei Go, Mitiko Jean, Thierry-mieg Danielle, Thierry-mieg Wiemann, Stefan Nomura, Nobuo Sugano, Sumio Gojobori, Takashi Imanishi, Tadashi
Copyright Year	2006
Abstract	We report the first genome-wide identification and characterization of alternative splicing in human gene transcripts based on analysis of the full-length cDNAs. Applying both manual and computational analyses for 56 419 completely sequenced and precisely annotated full-length cDNAs selected for the H-Invitational human transcriptome annotation meetings, we identified 6877 alternative splicing genes with 18 297 different alternative splicing variants. A total of 37 670 exons were involved in these alternative splicing events. The encoded protein sequences were affected in 6005 of the 6877 genes. Notably, alternative splicing affected protein motifs in 3015 genes, subcellular localizations in 2982 genes and transmembrane domains in 1348 genes. We also identified interesting patterns of alternative splicing, in which two distinct genes seemed to be bridged, nested or having overlapping protein coding sequences (CDSs) of different reading frames (multiple CDS). In these cases, completely unrelated proteins are encoded by a single locus. Genome-wide annotations of alternative splicing, relying on full-length cDNAs, should lay firm groundwork for exploring in detail the diversification of protein function, which is mediated by the fast expanding universe of alternative splicing variants.
Related Links	http://dx.doi.org/10.1093/nar/gkl507
Ending Page	3928
Page Count	12
Starting Page	3917
File Format	PDF
ISSN	03051048
e-ISSN	13624962
Journal	Nucleic Acids Research
Issue Number	14
Volume Number	34
Language	English
Publisher	Oxford University Press
Publisher Date	2006-07-01
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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Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56 419 completely sequenced and manually annotated full-length cDNAs

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