RegulonDB RegulonDB 10.9: Operon Form
   

nanATEK-yhcH operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: nanA
Gene(s): nanA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Kalivoda KA., et al., 2013
Promoter
Name: nanAp
+1: 3373620
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 44
Sequence: agatcgcattataagctttctgtatggggtgttgcttaattgatctggtataacaggtatAaaggtatatcgtttatcaga
                        -35                      -10        +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Kalivoda KA., et al., 2003
[4] Ohta Y., et al., 1985
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 nanAp 3373670 3373691 -60.5 aataatgccaCTTTAGTGAAGCAGATCGCATTAtaagctttct nd [BPP] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fis repressor nanAp 3373593 3373612 19.0 ataaaggtatATCGTTTATCAGACAAGCATcacttcagag nd [AIBSCS], [GEA] [5]
proximal Fis repressor nanAp 3373634 3373653 -23.0 ttctgtatggGGTGTTGCTTAATTGATCTGgtataacagg nd [AIBSCS], [GEA] [5]
proximal Fis repressor nanAp 3373663 3373682 -52.0 ctttagtgaaGCAGATCGCATTATAAGCTTtctgtatggg nd [AIBSCS], [GEA] [5]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NanR repressor nanAp 3373612 3373617 6.5 acaggtataaAGGTATAtcgtttatca nd [BPP], [GEA], [SM] [3], [6]
proximal NanR repressor nanAp 3373620 3373625 -2.5 ctggtataacAGGTATAaaggtatatc nd [BPP], [GEA], [SM] [3], [6]
proximal NanR repressor nanAp 3373629 3373634 -11.5 ttaattgatcTGGTATAacaggtataa nd [BPP], [GEA], [SM] [3], [6]


Transcription unit          
Name: nanATEK-yhcH
Gene(s): yhcH, nanK, nanE, nanT, nanA   Genome Browser M3D Gene expression COLOMBOS
Note(s): nanATEK-yhcH, among other genes involved in carbon source transport and metabolism, were downregulated in two MG1655 lysogens carrying closely related Stx2a phages O104 and PA8 1208335|.
Evidence: [CV(LTED/PM)] cross validation(LTED/PM)
[ITCR] Inferred through co-regulation
[LTED] Length of transcript experimentally determined
[PM] Polar mutation
Reference(s): [1] Kalivoda KA., et al., 2013
[3] Kalivoda KA., et al., 2003
[4] Ohta Y., et al., 1985
[6] Plumbridge J., et al., 1999
Promoter
Name: nanAp
+1: 3373620
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 44
Sequence: agatcgcattataagctttctgtatggggtgttgcttaattgatctggtataacaggtatAaaggtatatcgtttatcaga
                        -35                      -10        +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Kalivoda KA., et al., 2003
[4] Ohta Y., et al., 1985
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 nanAp 3373670 3373691 -60.5 aataatgccaCTTTAGTGAAGCAGATCGCATTAtaagctttct nd [BPP] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fis repressor nanAp 3373593 3373612 19.0 ataaaggtatATCGTTTATCAGACAAGCATcacttcagag nd [AIBSCS], [GEA] [5]
proximal Fis repressor nanAp 3373634 3373653 -23.0 ttctgtatggGGTGTTGCTTAATTGATCTGgtataacagg nd [AIBSCS], [GEA] [5]
proximal Fis repressor nanAp 3373663 3373682 -52.0 ctttagtgaaGCAGATCGCATTATAAGCTTtctgtatggg nd [AIBSCS], [GEA] [5]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NanR repressor nanAp 3373612 3373617 6.5 acaggtataaAGGTATAtcgtttatca nd [BPP], [GEA], [SM] [3], [6]
proximal NanR repressor nanAp 3373620 3373625 -2.5 ctggtataacAGGTATAaaggtatatc nd [BPP], [GEA], [SM] [3], [6]
proximal NanR repressor nanAp 3373629 3373634 -11.5 ttaattgatcTGGTATAacaggtataa nd [BPP], [GEA], [SM] [3], [6]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -16.7 3372584 3372613 aattttcataCCAAAGCGTGTGGGCATCGCCCACCGCGGgagactcaca
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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