RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: yccR
Gene(s): sxy   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF-SINGLE-DIRECTON] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: sxyp
+1: 1021083
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 55
Sequence: gtgacgggaaaacataaattaatcttgccccttaagaataagttgcctattttcgtagttAacggatccgttaatgtgaat
                         -35                    -10         +1                   
Evidence: [COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Jaskolska M., et al., 2015
[2] Salgado H, et al., 2012
TF binding sites (TFBSs)
[CRP-Sxy,+] 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 CRP-Sxy activator sxyp 1020991 1021013 -81.5 tcaaccctatTTTCGGAAAGAGCCTCGCAAATTttgtcgttgg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [1], [3]


Evidence    

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

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


Reference(s)    

 [1] Jaskolska M., Gerdes K., 2015, CRP-dependent positive autoregulation and proteolytic degradation regulate competence activator Sxy of Escherichia coli., Mol Microbiol 95(5):833-45

 [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.

 [3] Sondberg E., Sinha AK., Gerdes K., Semsey S., 2019, CRP Interacts Specifically With Sxy to Activate Transcription in Escherichia coli., Front Microbiol 10:2053

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