RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the GadE regulatory interaction in cyoA orthologous genes

In general an interaction is conserved if there is a significant overrepresentation of TFBSs in the set of orthologous promoters of the target gene. The set of orthologous promoter for cyoA was scanned with the annotated matrix for GadE. In order to avoid bias due to an excessive representation of close genomes (i.e. several E. coli genomes) we masked the regulatory sequences that were too similar. Overrepresentation is calculated based on the binomial distribution, comparing the observed scores vs. the expected ones for the masked sequence set.


Ortholog predicted binding sitescyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_sites.tab
Ortholog predicted binding sites graphcyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_sites.jpg
genescyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencecyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologscyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencescyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencescyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigcyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_occ_sig.tab
Occ sig graphcyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_occ_sig.jpg
(Click on image below)
Occ freq graphcyoA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_occ_freq.jpg
(Click on image below)
RegulonDB