RegulonDB RegulonDB 11.1: Operon Form

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

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

Transcription unit          
Name: ygbK
Gene(s): ygbK   Genome Browser M3D Gene expression COLOMBOS
Name: ygbKp
+1: 2862197
Sigma Factor: Sigma28 Sigmulon
Distance from start of the gene: 138
Sequence: cccgcattcagccgtcgatatttttgttaaggatcttggtctggttgccgatacagccaaAgccctgcacttcccgctgcc
                           -35                 -10          +1                   
Note(s): The sequence of this promoter has been defined, by computational analyses, from the consensus sequence of the σ28F) promoters: TAAAGTTT in the -35 box and GCCGATAA in the -10 box Park K,2001. Therefore, we assigned a putative transcription start site for this promoter based on the observation that the majority of the σ28 promoters, determined experimentally, present an important -10 motif (5'-CGA-3') at the positions -12 to -10 and a distance of 6 nucleotides between the transcription start site and the -10 box Yu HH, Di Russo EG, Rounds MA, Tan M,2006. Yu HH,2006. Park K,2001.
Park et al. showed in 2001 that transcription of ygbK is highly dependent on alternative factor σF Park K,2001. The transcription expression level was examined in a fliA mutant background.
Evidence: [COMP-AINF]
Reference(s): [1] Huerta AM., et al., 2003
[2] Park K., et al., 2001
TF binding sites (TFBSs)
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
nd FlhDC activator ygbKp nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [2]

Transcription unit       
Name: ygbJK
Gene(s): ygbJ, ygbK   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight