RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: slyB
Gene(s): slyB   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: slyBp2
+1: 1719748
Distance from start of the gene: 128
Sequence: gttggtagtaaaacattatcttcaaatcaataatcatcatgaatgttttgtttataattgGttgatcctactttcattatg
Evidence: [TIM]
Reference(s): [1] Minagawa S., et al., 2003
TF binding sites (TFBSs)
[PhoP,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PhoP-Phosphorylated repressor slyBp2 1719736 1719752 -4.0 atgaatgtttTGTTTATAATTGGTTGAtcctactttc nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [1]


Transcription unit          
Name: slyB
Gene(s): slyB   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: slyBp1
+1: 1719777
Distance from start of the gene: 99
Sequence: ataatcatcatgaatgttttgtttataattggttgatcctactttcattatgatttgctcAtatttggtagaacatgtaac
Evidence: [CV(RS-EPT-CBR/TA)]
[CV(TA/TIM)]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Minagawa S., et al., 2003
[2] Salgado H, et al., 2012
TF binding sites (TFBSs)
[PhoP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PhoP-Phosphorylated activator slyBp1 1719736 1719752 -33.0 atgaatgtttTGTTTATAATTGGTTGAtcctactttc nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [1]


Evidence    

 [TIM] Transcription initiation mapping

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [CV(CHIP-SV/GEA/ROMA)] cross validation(CHIP-SV/GEA/ROMA)

 [CV(GEA/ROMA)] cross validation(GEA/ROMA)

 [GEA] Gene expression analysis

 [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


Reference(s)    

 [1] Minagawa S., Ogasawara H., Kato A., Yamamoto K., Eguchi Y., Oshima T., Mori H., Ishihama A., Utsumi R., 2003, Identification and molecular characterization of the Mg2+ stimulon of Escherichia coli., J Bacteriol 185(13):3696-702

 [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.

RegulonDB