RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the MetR regulatory interaction in hmp 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 hmp was scanned with the annotated matrix for MetR. 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 siteshmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MetR_sites.tab
Ortholog predicted binding sites graphhmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MetR_sites.jpg
geneshmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencehmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
Orthologshmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequenceshmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequenceshmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sighmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MetR_occ_sig.tab
Occ sig graphhmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MetR_occ_sig.jpg
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Occ freq graphhmp_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MetR_occ_freq.jpg
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