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Bioinformatics Advance Access originally published online on March 7, 2007
Bioinformatics 2007 23(14):1815-1823; doi:10.1093/bioinformatics/btm084
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© The Author 2007. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

EuSplice: a unified resource for the analysis of splice signals and alternative splicing in eukaryotic genes

Ashwini Bhasi 1, Ram Vinay Pandey 2, Suriya Prabha Utharasamy 2 and Periannan Senapathy 1,*

1Department of Human Genetics, Genome Technologies, Inc., 8000 Excelsior Drive, Madison, WI 53717, USA and 2Department of Bioinformatics, International Center for Advanced Genomics and Proteomics, 383 1st Cross Street, Nehru Nagar, Chennai 600096, India

*To whom correspondence should be addressed.


  Abstract

Motivation: Despite increased availability of genome annotation data, a comprehensive resource for in-depth analysis of splice signal distributions and alternative splicing (AS) patterns in eukaryote genomes is still lacking. To meet this need, we have developed EuSplice—a unique splice-centric database which provides reliable splice signal and AS information for 23 eukaryotes.

Results: The EuSplice database contains 95 822 AS events and 2.1 million splice signals associated with over 270 000 protein-coding genes. The intuitive, user-friendly EuSplice web interface has powerful data mining and graphics capabilities for inter-genomic comparative analysis of splice signals, putative cryptic splice sites and AS events. Moreover, the seamless integration of splicing data to extensive gene-specific annotations, such as homolog annotations, functional information, mutations and sequence details makes EuSplice a powerful one-stop information resource for investigating the molecular mechanisms of complex splicing events, disease associations and the evolution of splicing in eukaryotes.

Availability: http://66.170.16.154/EuSplice

Contact: ps{at}genome.com

Supplementary information: Supplementary tables and figures at Bioinfo online.

Associate Editor: Alex Bateman

Received on November 17, 2006; revised on January 20, 2007; accepted on March 1, 2007

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