RegulonDB RegulonDB 10.10: Operon Form
   

rpsF-priB-rpsR-rplI operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: rpsF-priB-rpsR-rplI
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: rpsF-priB-rpsR-rplI
Gene(s): rpsF, priB, rpsR, rplI   Genome Browser M3D Gene expression COLOMBOS
Reference(s): [1] Allen GC., et al., 1991
Promoter
Name: rpsFp
+1: 4425025
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 93
Sequence: aggggagatttatttcggctctgcccttgagtttagcgaggcatacaagtactataacgcGtcatttttcagccgaccttt
                                                  -10       +1                   
Evidence: [HTTIM]    
[IHBCE]
[RS-EPT-CBR]
Reference(s): [2] Maciag A., et al., 2011
[3] Mendoza-Vargas A., et al., 2009
[4] Salgado H, et al., 2012
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CRP-cyclic-AMP activator rpsFp 4424923 4424939 -94.5 catgatgaagTGTGATGAACTTCAAATcagcgtgtta nd [GEA], [AIBSCS], [BPP] [5]


Evidence    

 [HTTIM] High-throughput transcription initiation mapping

 [IHBCE] Inferred by a human based on computational evidence

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

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Allen GC., Kornberg A., 1991, The priB gene encoding the primosomal replication n protein of Escherichia coli., J Biol Chem 266(18):11610-3

 [2] Maciag A., Peano C., Pietrelli A., Egli T., De Bellis G., Landini P., 2011, In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements., Nucleic Acids Res 39(13):5338-55

 [3] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [4] 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.

 [5] Shimada T., Yoshida H., Ishihama A., 2013, Involvement of cyclic AMP receptor protein in regulation of the rmf gene encoding the ribosome modulation factor in Escherichia coli., J Bacteriol 195(10):2212-9

RegulonDB