RegulonDB RegulonDB 10.9: Operon Form

yqhD-dkgA operon and associated TUs in Escherichia coli K-12 genome

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

Transcription unit          
Name: yqhD-dkgA
Gene(s): yqhD, dkgA   Genome Browser M3D Gene expression COLOMBOS
Note(s): A transcript containing the intergenic region of the yqhD and dkgA genes was identified by RT-PCR, suggesting that these two genes are part of the same operonTurner PC,2011.
Evidence: [IDA] Inferred from direct assay
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Turner PC., et al., 2011
Name: yqhDp
+1: 3155302
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 53
Sequence: ggcaagacattggcagaaatgagcattgagagccagggcgctggcgatcacaatgaaaaaCatcaggcagatcgttctctg
                          -35                    -10        +1                   
Evidence: [ICWHO]
Reference(s): [2] Huerta AM., et al., 2003
[3] Lee C., et al., 2010
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal YqhC activator yqhDp 3155217 3155241 -73.5 attttgtagcATTTCTCCAGCACTCTGGAGAAATAggcaagacat nd [BPP], [GEA], [SM] [3]
proximal YqhC activator yqhDp 3155238 3155262 -52.5 actctggagaAATAGGCAAGACATTGGCAGAAATGagcattgaga nd [GEA], [SM] [3]

Transcription unit       
Synonym(s): dkgA
Gene(s): dkgA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Name: dkgAp
+1: 3156571
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 52
Sequence: cccgctaagctttttacgcctcaaactttcgttttcgggcatttcgtccagacttaagttCacaacacctcaccggagcct
Evidence: [HTTIM]    
Reference(s): [4] Mendoza-Vargas A., et al., 2009

RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -19.1 3156579 3156602 tcacaacaccTCACCGGAGCCTGCTCCGGTGAGttcatataaa
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"