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Nucleic Acids Res. 2012 Jan;40(Database issue):D187-90. doi: 10.1093/nar/gkr1043. Epub 2011 Nov 10.

Database for bacterial group II introns.

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1
Department of Biological Sciences, University of Calgary, Calgary, Alberta T2N 1N4, Canada.

Abstract

The Database for Bacterial Group II Introns (http://webapps2.ucalgary.ca/~groupii/index.html#) provides a catalogue of full-length, non-redundant group II introns present in bacterial DNA sequences in GenBank. The website is divided into three sections. The first section provides general information on group II intron properties, structures and classification. The second and main section lists information for individual introns, including insertion sites, DNA sequences, intron-encoded protein sequences and RNA secondary structure models. The final section provides tools for identification and analysis of intron sequences. These include a step-by-step guide to identify introns in genomic sequences, a local BLAST tool to identify closest intron relatives to a query sequence, and a boundary-finding tool that predicts 5' and 3' intron-exon junctions in an input DNA sequence. Finally, selected intron data can be downloaded in FASTA format. It is hoped that this database will be a useful resource not only to group II intron and RNA researchers, but also to microbiologists who encounter these unexpected introns in genomic sequences.

PMID:
22080509
PMCID:
PMC3245105
DOI:
10.1093/nar/gkr1043
[Indexed for MEDLINE]
Free PMC Article
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