RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the CsgD regulatory interaction in iraP 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 iraP was scanned with the annotated matrix for CsgD. 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 sitesiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CsgD_sites.tab
Ortholog predicted binding sites graphiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CsgD_sites.jpg
genesiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequenceiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologsiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencesiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CsgD_occ_sig.tab
Occ sig graphiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CsgD_occ_sig.jpg
(Click on image below)
Occ freq graphiraP_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_CsgD_occ_freq.jpg
(Click on image below)
RegulonDB