RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit          
Name: ycdZ
Gene(s): ycdZ   Genome Browser M3D Gene expression COLOMBOS
Note(s): The functions of the CRP and CytR transcriptional regulator (CRP-CytR-CRP system) were added based on the behavior of this system in Escherichia coli Sernova NV,2012
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: ycdZp4
+1: 1100252
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 44
Sequence: taagtgtgatctacgtcactcataactgcaacggataatttgttgttgcataaaatgtgtGctcgatctcattcatggccg
                          -35                      -10      +1                   
Note(s): Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 4.01. P-value: 3.947e-5
Evidence: [ICWHO]
Reference(s): [1] Huerta AM., et al., 2003
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 CRP-cAMP activator ycdZp4 1100193 1100215 -48.0 tctgaagaatAAGTGTGATCTACGTCACTCATAactgcaacgg nd [AIBSCS] [2]
proximal CRP-cAMP activator ycdZp4 1100244 1100266 4.0 ttgttgcataAAATGTGTGCTCGATCTCATTCAtggccgcgtt nd [AIBSCS], [GEA] [2], [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cAMP repressor ycdZp4 1100193 1100215 -48.0 tctgaagaatAAGTGTGATCTACGTCACTCATAactgcaacgg nd [AIBSCS] [2]
proximal CRP-cAMP repressor ycdZp4 1100244 1100266 4.0 ttgttgcataAAATGTGTGCTCGATCTCATTCAtggccgcgtt nd [AIBSCS], [GEA] [2], [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CytR repressor ycdZp4 1100216 1100244 -22.0 gtcactcataACTGCAACGGATAATTTGTTGTTGCATAAaatgtgtgct nd [AIBSCS] [2]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -12.92 1100265 1100298 gatctcattcATGGCCGCGTTTTCTGCTATCATGCGCGGCATGaacatacttc
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"





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