RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: tcyP
Gene(s): tcyP   Genome Browser M3D Gene expression COLOMBOS
Note(s): tcyP expression is activated in sulfate-containing medium and repressed in cysteine-containing medium Chonoles Imlay KR,2015
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Chonoles Imlay KR., et al., 2015
Promoter
Name: tcyPp
+1: 1810882
Distance from start of the gene: 52
Sequence: tggaataagcaattccatttgaatataagagccagctcacagttctgttaatcttgcgccAacactatgactgctacgcag
Evidence: [CV(RS-EPT-CBR/TA)]
[CV(TA/TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Chonoles Imlay KR., et al., 2015
[2] Salgado H, et al., 2012
TF binding sites (TFBSs)
[CysB,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd CysB1 activator tcyPp nd nd nd nd nd [GEA] [1]
Note(s): 1tcyP transcription is activated by CysB when cysteine is scarce Chonoles Imlay KR,2015 There is a likely CysB-binding site 100 bp upstream of the promoter Chonoles Imlay KR,20151tcyP transcription is activated by CysB when cysteine is scarce Chonoles Imlay KR,2015 There is a likely CysB-binding site 100 bp upstream of the promoter Chonoles Imlay KR,2015


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -6.4 1810887 1810907 cgccaacactATGACTGCTACGCAGTGATAgaaataataa
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"


Evidence    

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

 [CV(TA/TIM)] cross validation(TA/TIM)

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

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis


Reference(s)    

 [1] Chonoles Imlay KR., Korshunov S., Imlay JA., 2015, Physiological Roles and Adverse Effects of the Two Cystine Importers of Escherichia coli., J Bacteriol 197(23):3629-44

 [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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