- Communication -

Volume 4

Full article

A search tool for identification and analysis of conserved sequence patterns in Saccharomyces spp. orthologous promoter

Davinder K. Kohli, Chittur V. Srikanth and Anand K. Bachhawat*

Institute of Microbial Technology, Sector 39-A, Chandigarh - 160 036, India
Phone: +91-172-690908; Fax: +91-172-690632 / +91-172-690585
Email: akbachhawat@hotmail.com,   anand@imtech.res.in
Homepage: http://imtech.res.in/~anand

*  corresponding author


Edited by H. Michael; received February 26, 2004; revised and accepted June 19, 2004; published June 30, 2004

Abstract

We describe a web-based resource to identify, search and analyze sequence patterns conserved in the multiple sequence alignments of orthologous promoters from closely related / distant Saccharomyces spp. The webtool interfaces with a database where conserved sequence patterns (greater than 4 bp) have been previously extracted from genome-wide promoter alignments, allowing one to carry out user-defined genome-wide searches for conserved sequences to assist in the discovery of novel promoter elements based on comparative genomics. The web-based server can be accessed at http://www2.imtech.res.in/ anand/sacch_prom_pat.html.

Key words: Saccharomyces, orthologs, promoter, database, comparative genomics, motif