RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the MlrA regulatory interaction in csgD 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 csgD was scanned with the annotated matrix for MlrA. 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 sitescsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MlrA_sites.tab
Ortholog predicted binding sites graphcsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MlrA_sites.jpg
genescsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencecsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologscsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencescsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencescsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigcsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MlrA_occ_sig.tab
Occ sig graphcsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MlrA_occ_sig.jpg
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Occ freq graphcsgD_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_MlrA_occ_freq.jpg
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