RegulonDB RegulonDB 10.7: Operon Form
   

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




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


Transcription unit          
Name: ygbA
Gene(s): ygbA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [AISDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Promoter
Name: ygbAp
+1: 2856828
Distance from start of the gene: 22
Sequence: ggctaacccttcttctttggagtcatagtgccctttaagattaagatgtaatataaatacAtcttaatgaggtggaggcag
Evidence: [TIM]
Reference(s): [1] Bodenmiller DM., et al., 2006
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
nd FNR1 repressor ygbAp nd nd nd nd nd [AIBSCS], [GEA] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NsrR repressor ygbAp 2856824 2856835 -1.0 agatgtaataTAAATACATCTTaatgaggtgg nd [APIORCISFBSCS], [GEA] [2]
proximal NsrR repressor ygbAp 2856826 2856844 -7.0 ttaagattaaGATGTAATATAAATACATCttaatgaggt nd [AIBSCS], [APIORCISFBSCS], [GEA] [1], [2]
remote NsrR repressor ygbAp 2856941 2856952 -118.0 tggttccgggAAAGATGCTGTTttgcagcttt nd [APIORCISFBSCS], [GEA] [2]
Note(s): 1By making use of microarray analyses, Constantinidou et al. Constantinidou C,2006 concluded that FNR represses ygbA gene expression. They also identified a putative FNR-binding site upstream of the gene, but the sequence was not shown.4By making use of microarray analyses, Constantinidou et al. Constantinidou C,2006 concluded that FNR represses ygbA gene expression. They also identified a putative FNR-binding site upstream of the gene, but the sequence was not shown.


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: reverse
Evidence: [ICA] Inferred by computational analysis
Reference(s): [4] Merino E, et al., 2005
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -9.3 2856821 2856849 gccctttaagATTAAGATGTAATATAAATACATCTTAAtgaggtggag
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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