Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

The RegPrecise is a database for capturing, visualization and analysis of transcription factor regulons that were reconstructed by the comparative genomic approach in a wide variety of prokaryotic genomes.more


Manually Curated

Manually Curated

Regulon Collections

Regulon Collections This section of the database represents the results of manually curated reconstrutions of transcriptional regulons using the comparative genomics approach.

Browse collections that organize the reconstructed regulons by phylogenetic, structural or functional properties of regulators.



Propagated Regulons

PropagatedThis section of the database represents the results of accurate automatic propagation of the manually curated regulons to novel closely related genomes.

For each regulog, the propagation procedure checks for the presence of orthologs for both a transcription factor gene and target genes (regulog members), and then performs search for candidate TF-binding sites in upstream regions of orthologous target genes

This procedure is considered to be accurate and conservative since it relies on the manually curated regulons and does not make an attempt for automatic prediction of new members of regulon.


Recent update, March 2016
More that 250 new TF regulogs for various TFs. Current release include 32 novel taxonomy collections of regulogs from Proteobacteria (17 new taxa), Firmicutes (6 taxa), Actinobacteria (5 taxa) and other phyla. We added 15 novel collections of regulogs for orthologous TFs including DasR, HisR, MntR, PdxR, PhrR, in Bacteria and CblR, Phr, RbkR, ThiR, in Archaea.

Upcoming, October 2016
A comprehensive collection of motifs reconstructed by comparative anlaysis for all major transcription factor families across thousands of bacterial genomes.

Please cite: RegPrecise 3.0 - A resource for genome-scale exploration of transcriptional regulation in bacteria. Novichkov PS, Kazakov AE, Ravcheev DA, Leyn SA, Kovaleva GY, Sutormin RA, Kazanov MD, Riehl W, Arkin AP, Dubchak I, Rodionov DA. BMC Genomics. 2013 Nov 1;14:745
Funding statement: RegPrecise development is sponsored by the Office of Science (BER), U.S. Department of Energy under contracts DE-AC02-05CH11231 with Lawrence Berkeley National Laboratory, and DE-SC000499 with Sanford-Burnham Medical Research Institute and Lawrence Berkeley National Laboratory; and National Science Foundation under contract DBI-0850546 with Sanford-Burnham Medical Research Institute.