RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the TrpR regulatory interaction in trpR 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 trpR was scanned with the annotated matrix for TrpR. 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 sitestrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_TrpR_sites.tab
Ortholog predicted binding sites graphtrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_TrpR_sites.jpg
genestrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequencetrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologstrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencestrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencestrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigtrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_TrpR_occ_sig.tab
Occ sig graphtrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_TrpR_occ_sig.jpg
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Occ freq graphtrpR_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_TrpR_occ_freq.jpg
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