RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the CytR regulatory interaction in rpoH 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 rpoH was scanned with the annotated matrix for CytR. 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 sitesrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_sites.tab
Ortholog predicted binding sites graphrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_sites.jpg
genesrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencerpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologsrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencesrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_sig.tab
Occ sig graphrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_sig.jpg
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Occ freq graphrpoH_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_freq.jpg
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