RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the CytR regulatory interaction in nupC 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 nupC 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 sitesnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_sites.tab
Ortholog predicted binding sites graphnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_sites.jpg
genesnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencenupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologsnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencesnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ signupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_sig.tab
Occ sig graphnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_sig.jpg
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Occ freq graphnupC_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CytR_occ_freq.jpg
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