RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: cydDC
Gene(s): cydC, cydD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [CV(LTED/PM)] cross validation(LTED/PM)
[CV(PET/PM)] cross validation(PET/PM)
[LTED] Length of transcript experimentally determined
[PM] Polar mutation
Reference(s): [1] Cook GM., et al., 1997
[2] Georgiou CD., et al., 1987
[3] Poole RK., et al., 1993
Promoter
Name: cydDp
+1: 931031
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 69
Sequence: aaaataattttacaaatcagtaacaaaagtaaagaaggcgacaccatgcgactatgggtcGcctttattttttccccgttg
                             -35                  -10       +1                   
Evidence: [TIM]
Reference(s): [1] Cook GM., et al., 1997
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
nd ArcA-Phosphorylated1 activator cydDp nd nd nd nd nd [GEA] [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR activator cydDp 931115 931128 -90.5 atggcagcacTTGATGCGGAACGCtacctcgatg nd [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] [1]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NarL-Phosphorylated activator cydDp 931103 931118 -80.0 ttgatgcggaACGCTACCTCGATGGTttagctgacg nd [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] [1]
remote NarL-Phosphorylated activator cydDp 931149 931164 -126.0 tatcgccaggCCATTACTTCGGCCGGtacaggctgc nd [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] [1]
Note(s): 1Under microaerobic conditions, ArcA activates cydD expression.4Under microaerobic conditions, ArcA activates cydD expression.


Regulation by sRNA    
  Small RNA name (Regulator) Regulation type Mechanism Function Binding Sites Evidence Reference
LeftPos RightPos Sequence (RNA-strand)
  fnrS antisense post-transcriptional regulation repressor       [IMP] [5]
Notes: "The provided sequence is that of the RNA strand,i.e. 'U's are showed instead the 'T'"


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -19.1 931018 931058 caaaagtaaaGAAGGCGACACCATGCGACTATGGGTCGCCTTTATTTTTTccccgttgta
  anti-terminator -11.63 931041 931110 gaacgctaccTCGATGGTTTAGCTGACGCAAAATAATTTTACAAATCAGTAACAAAAGTAAAGAAGGCGACACCATGCGactatgggtc
  anti-anti-terminator -9.4 931091 931124 cagcacttgaTGCGGAACGCTACCTCGATGGTTTAGCTGACGCaaaataattt
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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