RegulonDB Gene Evolutionary Conservation
Evolutionary conservation of the GlpR regulatory interaction in glpF 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 glpF was scanned with the annotated matrix for GlpR. 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 sitesglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GlpR_sites.tab
Ortholog predicted binding sites graphglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GlpR_sites.jpg
genesglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_genes.tab
Query sequenceglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_query_seq.fasta
OrthologsglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_bbh.tab
ortho sequencesglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq.fasta
Purged sequencesglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_ortho_seq_purged.fasta
Occ sigglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GlpR_occ_sig.tab
Occ sig graphglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GlpR_occ_sig.jpg
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Occ freq graphglpF_Escherichia_coli_K_12_substr__MG1655_uid57779_Gammaproteobacteria_GlpR_occ_freq.jpg
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