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Bioinformatics Vol. 19 no. 13 2003
Pages 1707-1709
© 2003 Oxford University Press

Applications Note

Intergenic sequence inspector: searching and identifying bacterial RNAs

Christophe Pichon and Brice Felden *

Laboratoire de Biochimie Pharmaceutique, Faculté de Pharmacie, Université de Rennes I, UPRES Jeune Equipe 2311, 2 avenue du Pr. Léon Bernard, 35043 Rennes, France

Received on December 18, 2002 ; revised on March 13, 2003 ; accepted on March 31, 2003

Summary:Intergenic Sequence Inspector (ISI) is a program that helps in identifying bacterial ribonucleic acids (RNAs). It automatically extracts, selects and visualizes candidate intergenic regions (IGRs) that bear conservations between phylogenetically related species, displaying sequence and structural signatures of RNA genes encompassing putative promoters, terminators, RNA secondary structure predictions and the G + C percent of the selected sequences. ISI is intentionally modular to analyze various bacterial genomes according to their intrinsic specificities and to the available data. ISI provides a sum of information to the user who can evaluate whether or not an IGR is susceptible to express RNAs.

Availability: The program can be downloaded at http://www.biochpharma.univ-rennes1.fr/ under the subsection 'Software'.

Contact: bfelden{at}univ-rennes1.fr

* To whom correspondence should be addressed.


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