RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the GadE regulatory interaction in gadE 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 gadE was scanned with the annotated matrix for GadE. 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
Ortholog predicted binding sites graphgadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_sites.jpg
Query sequencegadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
ortho sequencesgadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesgadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sig graphgadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_occ_sig.jpg
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Occ freq graphgadE_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GadE_occ_freq.jpg
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