Curation Information

Publication
Characterization of the Burkholderia thailandensis SOS response using whole transcriptome shotgun sequencing.;Ulrich RL, Deshazer D, Kenny TA, Ulrich MP, Moravusova A, Opperman T, Bavari S, Bowlin TL, Moir DT, Panchal RG;Applied and environmental microbiology 2013 Jul 19; (): [23872555]
TF
LexA [Q2SVP7, view regulon]
Reported TF sp.
Burkholderia thailandensis E264
Reported site sp.
Burkholderia thailandensis E264
Created by
Erill Lab
Curation notes
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Experimental Process

RNA-seq with w-t and a recA mutant. Genes induced only in w-t with mit-C or ciprofloxacin assumed to be LexA regulated. Putative sites identified by search with Gammaproteobacteria LexA-binding consensus.

Transcription Factor Binding Sites


CTGTATTTTTATACAG
CTGTGTTTTTGTACAG
CTGTTTTTTTATACAG
CTGGTTCGACGGCCAG
CTGTATTTTTATACAG
CTGTGTTTTTGTACAG
CTGTTTTTTTATACAG
CTGGTTCGACGGCCAG

Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type
CTGTATTTTTATACAG lexA,
... ... lexA BTH_I2480 cysT BTH_I2478 BTH_I2477 BTH_I2476 BTH_I2482
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details RNA-Seq (ECO:0005664) - repressor dimer
CTGTGTTTTTGTACAG BTH_I1859,
... ... BTH_I1859 BTH_I1858
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details RNA-Seq (ECO:0005664) - repressor dimer
CTGTTTTTTTATACAG recA, recX,
... ... recA recX BTH_I0642 BTH_I0641
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details RNA-Seq (ECO:0005664) - repressor dimer
CTGGTTCGACGGCCAG dnaE2,
... ... dnaE2 BTH_I0444 BTH_I0443 BTH_I0442 BTH_I0441 BTH_I0440
Experimental technique details Consensus search (ECO:0005624) - Experimental technique details RNA-Seq (ECO:0005664) - repressor dimer