RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: yeaM
Gene(s): nimR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF-SINGLE-DIRECTON] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: nimRp
+1: 1875600
Distance from start of the gene: 24
Sequence: gttacaaacgaggctgtaccttaccgtttttattgttatgttgaatcaagctaaaatgacAaattatcgctaagttcggac
Evidence: [AS-NAS]
Reference(s): [1] Ogasawara H., et al., 2015
TF binding sites (TFBSs)
[NimR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NimR repressor nimRp 1875574 1875595 17.0 atgacaaattATCGCTAAGTTCGGACAAAATGatgcacaggt nd [COMP-AINF], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [1], [2]
proximal NimR repressor nimRp 1875623 1875637 -29.5 ctgtaccttaCCGTTTTTATTGTTAtgttgaatca nd [COMP-AINF], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [1], [2]
proximal NimR repressor nimRp 1875649 1875667 -57.5 gtcatatgctTCTCATTGTTACAAACGAGgctgtacctt nd [COMP-AINF], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF], [EXP-GSELEX], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [1], [2]


Evidence    

 [AS-NAS] Non-traceable author statement

 [COMP-AINF] Inferred computationally without human oversight

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [EXP-GSELEX] genomic SELEX


Reference(s)    

 [1] Ogasawara H., Ohe S., Ishihama A., 2015, Role of transcription factor NimR (YeaM) in sensitivity control of Escherichia coli to 2-nitroimidazole., FEMS Microbiol Lett 362(1):1-8

 [2] 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

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