Intronerator

Intronerator is NAR Database No. 238.

Database Description

The Intronerator (http://www.cse.ucsc.edu/~kent/intronerator/) is a set of web-based tools for exploring RNA splicing and gene structure in C. elegans. It includes a display of predicted genes, cDNA alignments with the genomic sequence, a catalog of alternatively spliced genes, a database of introns and alignment data for C. briggsae sequences with the C. elegans genome. The cDNA alignments include over 100,000 ESTs and almost 1000 full length cDNAs. ESTs from embryos and mixed stage animals as well as full-length cDNAs can be compared in the alignment display with each other and with predicted genes. The alt-splicing catalog includes 844 open reading frames for which there is evidence of alternative splicing of pre-mRNA. The intron database includes 28478 introns, and can be searched for patterns near the splice junctions. Eight million bases of C. briggsae genomic sequence have been aligned with the C. elegans genome using the WABA algorithm (W.J. Kent and A.M. Zahler. 2000. Genome Res. 10:1115-1125), and this alignment data is accessible via the Tracks Display of Intronerator.

Authors

• Missing

External Links

• Intronerator homepage
• Intronerator abstract in the NAR 2000 Database Issue

Contact Email

• zahler@biology.ucsc.edu

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Categories: NARDatabase | NARDatabase:Nucleotide Sequence Databases | NARDatabase:Gene structure, introns and exons, splice sites | NARDatabase:RNA sequence databases | NARDatabase:Genomics Databases (non-vertebrate) | NARDatabase:Invertebrate genome databases