RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: pepA
Gene(s): pepA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: pepAp3
+1: 4486101
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 150
Sequence: taaacgtcatttattctcttgagtcgtcgaaatcgtcgctaagataattatactcaacggAttcacctctcagattttgtt
                          -35                    -10        +1                   
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Charlier D., et al., 1995
[2] Salgado H, et al., 2012


Transcription unit       
Name: pepA
Gene(s): pepA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: pepAp2
+1: 4486112
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 161
Sequence: gtttcatggcttaaacgtcatttattctcttgagtcgtcgaaatcgtcgctaagataattAtactcaacggattcacctct
                              -35                  -10      +1                   
Evidence: [TIM]
Reference(s): [1] Charlier D., et al., 1995


Transcription unit          
Name: pepA
Gene(s): pepA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: pepAp1
+1: 4486139
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 188
Sequence: aactcgtcttttgcaggattttagcttgtttcatggcttaaacgtcatttattctcttgaGtcgtcgaaatcgtcgctaag
                          -35                     -10       +1                   
Evidence: [TIM]
Reference(s): [1] Charlier D., et al., 1995
TF binding sites (TFBSs)
[PepA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PepA repressor pepAp1 4486169 4486195 -43.0 cgtaaaaactCGTCTTTTGCAGGATTTTAGCTTGTTTcatggcttaa nd [BPP] [1]


Evidence    

 [CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR)

 [CV(TIM)] cross validation(TIM)

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

 [TIM] Transcription initiation mapping

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Charlier D., Hassanzadeh G., Kholti A., Gigot D., Pierard A., Glansdorff N., 1995, carP, involved in pyrimidine regulation of the Escherichia coli carbamoylphosphate synthetase operon encodes a sequence-specific DNA-binding protein identical to XerB and PepA, also required for resolution of ColEI multimers., J Mol Biol 250(4):392-406

 [2] 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.

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