RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: fldB
Gene(s): fldB   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: fldBp
+1: 3039822
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 33
Sequence: ctcatttgatccattatgccttattgtgccgtgactaaagcgattctgatacactagccgCaaaagccacagcagaatcga
                        -35                       -10       +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [1] Gaudu P., et al., 2000
[2] Huerta AM., et al., 2003
[3] Salgado H, et al., 2012
TF binding sites (TFBSs)
[SoxS,+] 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 SoxS activator fldBp 3039763 3039782 -49.0 ttatggtcacTCATTTGATCCATTATGCCTtattgtgccg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [1]
proximal SoxS activator fldBp 3039774 3039794 -38.0 catttgatccATTATGCCTTATTGTGCCGTGactaaagcga nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [1], [4]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [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] Gaudu P., Weiss B., 2000, Flavodoxin mutants of Escherichia coli K-12., J Bacteriol 182(7):1788-93

 [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.

 [4] Martin RG., Rosner JL., 2002, Genomics of the marA/soxS/rob regulon of Escherichia coli: identification of directly activated promoters by application of molecular genetics and informatics to microarray data., Mol Microbiol 44(6):1611-24

RegulonDB