Tassdb: a Database of Alternative Tandem Splice Sites.
From: Institute of Computer Science, Chair for Bioinformatics, Albert-Ludwigs-University Freiburg, Georges-Koehler-Allee 106, 79110 Freiburg, Germany.
Nucleic acids research
- Publish Date: Jan 2007
- ISSN: 1362-4962
- Volume: 35
- Issue: Database issue
- Pages: D188-92
- Medium: Internet
- Language: English
- Citation (JAMA): Hiller Michael, Nikolajewa Swetlana, Huse Klaus, et al. Tassdb: a Database of Alternative Tandem Splice Sites.. Nucleic Acids Res. Jan 2007;35:D188-92
Abstract
Subtle alternative splice events at tandem splice sites are frequent in eukaryotes and substantially increase the complexity of transcriptomes and proteomes. We have developed a relational database, TassDB (TAndem Splice Site DataBase), which stores extensive data about alternative splice events at GYNGYN donors and NAGNAG acceptors. These splice events are of subtle nature since they mostly result in the insertion/deletion of a single amino acid or the substitution of one amino acid by two others. Currently, TassDB contains 114 554 tandem splice sites of eight species, 5209 of which have EST/mRNA evidence for alternative splicing. In addition, human SNPs that affect NAGNAG acceptors are annotated. The database provides a user-friendly interface to search for specific genes or for genes containing tandem splice sites with specific features as well as the possibility to download large datasets. This database should facilitate further experimental studies and large-scale bioinformatics analyses of tandem splice sites. The database is available at http://helios.informatik.uni-freiburg.de/TassDB/.
Mesh Headings (Keywords): Alternative Splicing, Animals, Databases, Nucleic Acid, Genomics, Humans, Internet, Mice, Polymorphism, Single Nucleotide, RNA Splice Sites, Rats, User-Computer Interface
Check for Full Text / PubMed Unique Identifier (PMID): 17142241
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