RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the FadR regulatory interaction in uspA 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 uspA was scanned with the annotated matrix for FadR. 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 sitesuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_FadR_sites.tab
Ortholog predicted binding sites graphuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_FadR_sites.jpg
genesuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequenceuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologsuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencesuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ siguspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_FadR_occ_sig.tab
Occ sig graphuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_FadR_occ_sig.jpg
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Occ freq graphuspA_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_FadR_occ_freq.jpg
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