RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: adiY
Gene(s): adiY   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: adiYp
+1: 4338042
Distance from start of the gene: 113
Sequence:
Evidence: [COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] Stim-Herndon KP., et al., 1996
TF binding sites (TFBSs)
[H-NS,-] 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
nd H-NS repressor adiYp nd nd nd nd nd [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd [3]
sRNA Interaction TU
sRNA TU Regulated Function Binding Sites Regulatory Mechanism Evidence (Confirmed, Strong, Weak) Reference(s)
PosLeft PosRight Target sequence (mRNA)
small regulatory RNA SgrS adiY repressor 4337931 4337945 CAUGUACUCCUGAGU TRANSLATION-BLOCKING, MRNA-DEGRADATION [EXP-IMP], [EXP-IMP-SITE-MUTATION] [2]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -9.7 4338099 4338136 catactttttGCGCGGCCCCACCCCGCGCTTTTTTTTGCCTGTTATTtatcctgtaa
  anti-terminator -8.0 4338130 4338163 cataaaaattGCTGCAAACAAAAATGTCATACTTTTTGCGCGGccccaccccg
  anti-anti-terminator -5.3 4338151 4338194 gccttaggccTTTTGAGTATGGCAACGTTTTCATAAAAATTGCTGCAAACAAAaatgtcatac
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"


Evidence    

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

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

 [EXP-IMP] Inferred from mutant phenotype

 [EXP-IMP-SITE-MUTATION] Site mutation


Reference(s)    

 [1] Stim-Herndon KP., Flores TM., Bennett GN., 1996, Molecular characterization of adiY, a regulatory gene which affects expression of the biodegradative acid-induced arginine decarboxylase gene (adiA) of Escherichia coli., Microbiology 142 ( Pt 5):1311-20

 [2] Bobrovskyy M., Vanderpool CK., 2016, Diverse mechanisms of post-transcriptional repression by the small RNA regulator of glucose-phosphate stress., Mol Microbiol 99(2):254-73

 [3] Krin E., Danchin A., Soutourina O., 2010, Decrypting the H-NS-dependent regulatory cascade of acid stress resistance in Escherichia coli., BMC Microbiol 10:273

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