RegulonDB RegulonDB 11.1: Operon Form
   

alaA-yfbR operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: alaA
Gene(s): alaA   Genome Browser M3D Gene expression COLOMBOS
Note(s): Alanine and leucine modestly repressed the avtA and alaA genes via Lrp Kim SH,2010
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: alaAp9
+1: 2407408
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 153
Sequence: aagaatcagaacaattcactatataacattgcatgtaaagcatatacacctcattattttGtcattattaagttattaaca
                            -35                  -10        +1                   
Evidence: [COMP-AINF]
Reference(s): [1] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[Lrp,-] 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 Lrp-L-leucine repressor alaAp9 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [2]


Transcription unit       
Name: yfbR
Gene(s): yfbR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: yfbRp3
+1: 2408831
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 31
Sequence: agctgtaatcttaatttcactgccggagattgcatccggcagcgttatcccgccacaatgAcctgatgatgtcatcatacg
                             -35                   -10      +1                   
Evidence: [COMP-AINF]
Reference(s): [1] Huerta AM., et al., 2003


Transcription unit       
Name: alaA-yfbR
Gene(s): alaA, yfbR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IEP-COREGULATION] Inferred through co-regulation
Reference(s): [2] Kim SH., et al., 2010


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -6.0 2407514 2407531 tctaagctgaCTTCCACGGCAGGGAGTggcgataaca
  terminator -10.4 2408829 2408859 ccgccacaatGACCTGATGATGTCATCATACGTAAGGTCActatgaaaca
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-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [2] Kim SH., Schneider BL., Reitzer L., 2010, Genetics and regulation of the major enzymes of alanine synthesis in Escherichia coli., J Bacteriol 192(20):5304-11

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