RegulonDB RegulonDB 10.8: Operon Form
   

xseA operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: xseA
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: xseA
Gene(s): xseA   Genome Browser M3D Gene expression COLOMBOS
Reference(s): [1] Hutchings MI., et al., 2000
Promoter
Name: xseAp
+1: 2634197
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 35
Sequence: catctacccctttttgcaaaaaatgcttgctatccccgaagggcgggttactatcgactgAataacctgctgatttagaat
                           -35                      -10     +1                   
Evidence: [HIPP]
[RS-EPT-CBR]
Reference(s): [2] Davies IJ., et al., 1996
[3] Salgado H, et al., 2012
TF binding sites (TFBSs)
[CRP,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cAMP repressor xseAp 2634214 2634235 28.5 tgctgatttaGAATTTGATCTCGCTCACATGTtaccttctca nd [BPP], [CV(SM)], [GEA], [SM] [1], [5]
[MarA,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal MarA activator xseAp 2634148 2634163 -42.0 atctacccctTTTTGCAAAAAATGCTtgctatcccc nd [BPP], [CV(GEA)], [CV(GEA)], [GEA], [ICWHO] [4]


Evidence    

 [HIPP] Human inference of promoter position

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [BPP] Binding of purified proteins

 [CV(SM)] cross validation(SM)

 [GEA] Gene expression analysis

 [SM] Site mutation

 [CV(GEA)] cross validation(GEA)

 [ICWHO] Inferred computationally without human oversight


Reference(s)    

 [1] Hutchings MI., Drabble WT., 2000, Regulation of the divergent guaBA and xseA promoters of Escherichia coli by the cyclic AMP receptor protein., FEMS Microbiol Lett 187(2):115-22

 [2] Davies IJ., Drabble WT., 1996, Stringent and growth-rate-dependent control of the gua operon of Escherichia coli K-12., Microbiology 142 ( Pt 9):2429-37

 [3] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [4] Sharma P., Haycocks JRJ., Middlemiss AD., Kettles RA., Sellars LE., Ricci V., Piddock LJV., Grainger DC., 2017, The multiple antibiotic resistance operon of enteric bacteria controls DNA repair and outer membrane integrity., Nat Commun 8(1):1444

 [5] Husnain SI., Busby SJ., Thomas MS., 2009, Downregulation of the Escherichia coli guaB promoter by upstream-bound cyclic AMP receptor protein., J Bacteriol 191(19):6094-104

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