RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the PdhR regulatory interaction in hemL 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 hemL was scanned with the annotated matrix for PdhR. 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 siteshemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_PdhR_sites.tab
Ortholog predicted binding sites graphhemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_PdhR_sites.jpg
geneshemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencehemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologshemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequenceshemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequenceshemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sighemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_PdhR_occ_sig.tab
Occ sig graphhemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_PdhR_occ_sig.jpg
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Occ freq graphhemL_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_PdhR_occ_freq.jpg
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