RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: nanCMS
Gene(s): nanS, nanM, nanC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Kalivoda KA., et al., 2013
Promoter
Name: nanCp
+1: 4539928
Distance from start of the gene: 427
Sequence: aattgcaaatctggttttgttgtatggattgcgtgatttttgatctggtataacaggtatAaaggtgcaccaagatagtca
Evidence: [TIM]
Reference(s): [2] Condemine G., et al., 2005
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator nanCp 4539979 4540000 -61.5 gatcgacataTTTTGTGACACGAATTGCAAATctggttttgt nd [GEA], [AIBSCS], [BPP] [2]
[NagC,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NagC repressor nanCp 4539982 4540004 -65.0 aaaagatcgaCATATTTTGTGACACGAATTGCAaatctggttt nd [GEA], [AIBSCS], [APIORCISFBSCS], [BPP], [SM] [2]
remote NagC repressor nanCp 4540194 4540216 -277.0 aaccaggaaaCATATTTCATGATGAGAATTATGctcagcctga nd [AIBSCS], [APIORCISFBSCS], [BPP], [SM] nd
[NanR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NanR repressor nanCp 4539922 4539923 6.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]
proximal NanR repressor nanCp 4539930 4539931 -2.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]
proximal NanR repressor nanCp 4539939 4539940 -11.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]


Transcription unit          
Name: nanCM
Gene(s): nanM, nanC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: nanCp
+1: 4539928
Distance from start of the gene: 427
Sequence: aattgcaaatctggttttgttgtatggattgcgtgatttttgatctggtataacaggtatAaaggtgcaccaagatagtca
Evidence: [TIM]
Reference(s): [2] Condemine G., et al., 2005
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator nanCp 4539979 4540000 -61.5 gatcgacataTTTTGTGACACGAATTGCAAATctggttttgt nd [GEA], [AIBSCS], [BPP] [2]
[NagC,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NagC repressor nanCp 4539982 4540004 -65.0 aaaagatcgaCATATTTTGTGACACGAATTGCAaatctggttt nd [GEA], [AIBSCS], [APIORCISFBSCS], [BPP], [SM] [2]
remote NagC repressor nanCp 4540194 4540216 -277.0 aaccaggaaaCATATTTCATGATGAGAATTATGctcagcctga nd [AIBSCS], [APIORCISFBSCS], [BPP], [SM] nd
[NanR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NanR repressor nanCp 4539922 4539923 6.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]
proximal NanR repressor nanCp 4539930 4539931 -2.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]
proximal NanR repressor nanCp 4539939 4539940 -11.5 nd nd [GEA], [APIORCISFBSCS], [BPP], [GS], [SM] [1], [2], [3], [4]


Transcription unit       
Name: yjhA
Gene(s): nanC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IHBCE] Inferred by a human based on computational evidence


Transcription unit       
Name: nanS
Gene(s): nanS   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight


Evidence    

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [SM] Site mutation

 [GS] genomic SELEX


Reference(s)    

 [1] Kalivoda KA., Steenbergen SM., Vimr ER., 2013, Control of the Escherichia coli sialoregulon by transcriptional repressor NanR., J Bacteriol 195(20):4689-701

 [2] Condemine G., Berrier C., Plumbridge J., Ghazi A., 2005, Function and expression of an N-acetylneuraminic acid-inducible outer membrane channel in Escherichia coli., J Bacteriol 187(6):1959-65

 [3] El-Labany S., Sohanpal BK., Lahooti M., Akerman R., Blomfield IC., 2003, Distant cis-active sequences and sialic acid control the expression of fimB in Escherichia coli K-12., Mol Microbiol 49(4):1109-18

 [4] Shimada T., Ogasawara H., Ishihama A., 2018, Single-target regulators form a minor group of transcription factors in Escherichia coli K-12., Nucleic Acids Res 46(8):3921-3936

 [5] Beisel CL., Storz G., 2011, The base-pairing RNA spot 42 participates in a multioutput feedforward loop to help enact catabolite repression in Escherichia coli., Mol Cell 41(3):286-97

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