U12DB: a database of orthologous U12-type spliceosomal introns

U12-type introns are spliced by the U12-dependent spliceosome and are present in the genomes of many higher eukaryotic lineages including plants, chordates and some invertebrates. However, due to their relatively recent discovery and a systematic bias against recognition of non-canonical splice site...

Full description

Saved in:
Bibliographic Details
Published in:Nucleic acids research 2007-01, Vol.35 (suppl-1), p.D110-D115
Main Author: Alioto, Tyler S
Format: Article
Language:English
Subjects:
Animals
Chordata
Databases, Nucleic Acid
Humans
Internet
Introns
Phylogeny
RNA Splice Sites
RNA Splicing
RNA, Small Nuclear - metabolism
Spliceosomes - metabolism
User-Computer Interface
Citations: Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:U12-type introns are spliced by the U12-dependent spliceosome and are present in the genomes of many higher eukaryotic lineages including plants, chordates and some invertebrates. However, due to their relatively recent discovery and a systematic bias against recognition of non-canonical splice sites in general, the introns defined by U12-type splice sites are under-represented in genome annotations. Such under-representation compounds the already difficult problem of determining gene structures. It also impedes attempts to study these introns genome-wide or phylum-wide. The resource described here, the U12 Intron Database (U12DB), aims to catalog the U12-type introns of completely sequenced eukaryotic genomes in a framework that groups orthologous introns with each other. This will aid further investigations into the evolution and mechanism of U12-dependent splicing as well as assist ongoing genome annotation efforts. Public access to the U12DB is available at http://genome.imim.es/cgi-bin/u12db/u12db.cgi.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkl796