RegulonDB RegulonDB 11.1: 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: [COMP-AINF] 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: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Charlier D., et al., 1995
[2] Huerta AM., et al., 2003
[3] Salgado H, et al., 2012


Transcription unit       
Name: pepA
Gene(s): pepA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] 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: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Charlier D., et al., 1995
[2] Huerta AM., et al., 2003


Transcription unit          
Name: pepA
Gene(s): pepA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] 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: [COMP-AINF]
[COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Charlier D., et al., 1995
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[PepA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PepA repressor pepAp1 4486169 4486195 -43.0 cgtaaaaactCGTCTTTTGCAGGATTTTAGCTTGTTTcatggcttaa nd [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [1]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF] Inferred by a human based on computational evidence

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

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

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] 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] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [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.

RegulonDB