RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit          
Name: trxA
Gene(s): trxA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Matsumoto Y., et al., 1986
Promoter
Name: trxAp1
+1: 3965647
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 114
Sequence: gcgaagtcggaaaacttctgttctgttaaatgtgttttgctcatagtgtggtagaatatcAgcttactattgctttacgaa
                       -10-35                               +1                   
Note(s): This promoter is induced by ppGpp and also by stationary phase.
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [2] Aldea M., et al., 1988
[1] Matsumoto Y., et al., 1986
Terminator(s)
Type: rho-independent
Sequence: atttcatgttCGGGTGCCCCGTCGCTAAAAACTGGACGCCCGgcgtgagtca
Reference(s): [1] Matsumoto Y., et al., 1986
TF binding sites (TFBSs)
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 trxAp1 3965613 3965634 -23.5 tctgttctgtTAAATGTGTTTTGCTCATAGTGTggtagaatat nd [BPP], [GEA] nd
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp activation trxAp1 nd   [IMP] [3]
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [3] Lim CJ., et al., 2000


Transcription unit       
Name: trxA
Gene(s): trxA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Matsumoto Y., et al., 1986
Promoter
Name: trxAp3
+1: 3965650
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 111
Sequence: aagtcggaaaacttctgttctgttaaatgtgttttgctcatagtgtggtagaatatcagcTtactattgctttacgaaagc
                       -35                       -10        +1                   
Note(s): This promoter was not identified in the analysis of transcription initiation mapping of trxA done by Matsumoto et al. Matsumoto Y,1986.
Evidence: [HIPP]
[IHBCE]
[RS-EPT-CBR]
[TIM]
Reference(s): [4] Horn M., et al., 1985
[5] MacLean DB. 1985
[1] Matsumoto Y., et al., 1986
[6] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: atttcatgttCGGGTGCCCCGTCGCTAAAAACTGGACGCCCGgcgtgagtca
Reference(s): [1] Matsumoto Y., et al., 1986


Transcription unit       
Name: trxA
Gene(s): trxA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Matsumoto Y., et al., 1986
Promoter
Name: trxAp2
+1: 3965687
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 74
Sequence: tcatagtgtggtagaatatcagcttactattgctttacgaaagcgtatccggtgaaataaAgtcaacctttagttggttaa
                              -35                    -10    +1                   
Note(s): This promoter is induced by ppGpp and also by stationary phase.
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [2] Aldea M., et al., 1988
[7] Huerta AM., et al., 2003
Terminator(s)
Type: rho-independent
Sequence: atttcatgttCGGGTGCCCCGTCGCTAAAAACTGGACGCCCGgcgtgagtca
Reference(s): [1] Matsumoto Y., et al., 1986
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp activation trxAp2 nd   [IMP] [3]
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [3] Lim CJ., et al., 2000




Reference(s)    

 [1] Matsumoto Y., Shigesada K., Hirano M., Imai M., 1986, Autogenous regulation of the gene for transcription termination factor rho in Escherichia coli: localization and function of its attenuators., J Bacteriol 166(3):945-58

 [2] Aldea M., Claverie-Martin F., Diaz-Torres MR., Kushner SR., 1988, Transcript mapping using [35S]DNA probes, trichloroacetate solvent and dideoxy sequencing ladders: a rapid method for identification of transcriptional start points., Gene 65(1):101-10

 [3] Lim CJ., Daws T., Gerami-Nejad M., Fuchs JA., 2000, Growth-phase regulation of the Escherichia coli thioredoxin gene., Biochim Biophys Acta 1491(1-3):1-6

 [4] Horn M., Witztum K., Neveu C., Perkins G., Walsh B., 1985, Krypton-81m imaging of the right ventricle., J Nucl Med 26(1):33-6

 [5] MacLean DB., 1985, Abrogation of peripheral cholecystokinin-satiety in the capsaicin treated rat., Regul Pept 11(4):321-33

 [6] 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.

 [7] 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


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