RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: rtcBA
Gene(s): rtcA, rtcB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Genschik P., et al., 1998
Promoter
Name: rtcBp
+1: 3558107
Sigma Factor: Sigma54 Sigmulon
Distance from start of the gene: 28
Sequence: tgaattaaaaaattaagctgcttatttaattttctggcacgacggttgcaattatcaggaCagcaaacaacgaaaagagaa
                                        -24        -12      +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[COMP-HINF-SIMILAR-TO-CONSENSUS]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Genschik P., et al., 1998
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[IHF,+] 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 IHF activator rtcBp 3558153 3558165 -52.0 taaaacaatgAATTAAAAAATTAagctgcttat nd [COMP-AINF-SIMILAR-TO-CONSENSUS] nd [1]
proximal IHF activator rtcBp 3558163 3558175 -62.0 taatctttttTAAAACAATGAATtaaaaaatta nd [COMP-AINF-SIMILAR-TO-CONSENSUS] nd [1]
[RtcR,+] 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
nd RtcR activator rtcBp nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [1]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

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

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis


Reference(s)    

 [1] Genschik P., Drabikowski K., Filipowicz W., 1998, Characterization of the Escherichia coli RNA 3'-terminal phosphate cyclase and its sigma54-regulated operon., J Biol Chem 273(39):25516-26

 [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

RegulonDB