RegulonDB RegulonDB 10.7: Operon Form
   

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




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


Transcription unit          
Name: ybiT
Gene(s): ybiT   Genome Browser M3D Gene expression COLOMBOS
Evidence: [AISDTU] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: ybiTp
+1: 855947
Distance from start of the gene: 16
Sequence: taagcgaggagcaggatcttctttcagacttatggcataatgcgcggtttgtcatatctcTtttcaggatacgcctgtgtt
Evidence: [HTIM]
Reference(s): [1] Raghavan R., et al., 2011
TF binding sites (TFBSs)
[AscG,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote AscG repressor ybiTp 855832 855846 -108.5 cagctcacagTGAAATCAGATGTGTacgaaatcac nd [AIBSCS], [BPP] [2]
[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-cAMP activator ybiTp 855839 855861 -97.5 cagtgaaatcAGATGTGTACGAAATCACATTTTttgcctttgg nd [AIBSCS], [APIORCISFBSCS], [GEA] [1], [3], [4]
remote CRP-cAMP repressor ybiTp 855839 855861 -97.5 cagtgaaatcAGATGTGTACGAAATCACATTTTttgcctttgg nd [AIBSCS], [APIORCISFBSCS], [GEA] [1], [3], [4]


Evidence    

 [HTIM] High-throughput transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins

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

 [GEA] Gene expression analysis


Reference(s)    

 [1] Raghavan R., Sage A., Ochman H., 2011, Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli., J Bacteriol 193(11):2871-4

 [2] Ishida Y., Kori A., Ishihama A., 2009, Participation of regulator AscG of the beta-glucoside utilization operon in regulation of the propionate catabolism operon., J Bacteriol 191(19):6136-44

 [3] Tsai MJ., Wang JR., Yang CD., Kao KC., Huang WL., Huang HY., Tseng CP., Huang HD., Ho SY., 2018, PredCRP: predicting and analysing the regulatory roles of CRP from its binding sites in Escherichia coli., Sci Rep 8(1):951

 [4] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93

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