RegulonDB RegulonDB 10.9: Operon Form
   

araE-ygeA operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: araE
Synonym(s): OP00103
Gene(s): araE   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Ebright RH., et al., 1985
[2] Heffernan L., et al., 1976
[3] Stringer AM., et al., 2014
Promoter
Name: araEp
+1: 2982208
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 26
Sequence: catatttatgctgtttccgacctgacacctgcgtgagttgttcacgtattttttcactatGtcttactctctgctggcagg
                      -35                      -10          +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [4] Huerta AM., et al., 2003
[5] Stoner C., et al., 1983
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
proximal AraC-arabinose activator araEp 2982244 2982260 -44.0 atccatatttATGCTGTTTCCGACCTGAcacctgcgtg nd [APIORCISFBSCS], [BPP] [5]
proximal AraC-arabinose activator araEp 2982265 2982281 -65.0 acgacatgtcGCAGCAATTTAATCCATAtttatgctgt nd [APIORCISFBSCS], [BPP] [5]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CRP-cAMP activator araEp 2982292 2982313 -94.5 cttaatttgaAAATTGGAATATCCATCACATAAcgacatgtcg nd [AIBSCS], [BPP] [5]


Transcription unit          
Name: araE-ygeA
Gene(s): ygeA, araE   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [3] Stringer AM., et al., 2014
Promoter
Name: araEp
+1: 2982208
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 26
Sequence: catatttatgctgtttccgacctgacacctgcgtgagttgttcacgtattttttcactatGtcttactctctgctggcagg
                      -35                      -10          +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [4] Huerta AM., et al., 2003
[5] Stoner C., et al., 1983
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
proximal AraC-arabinose activator araEp 2982244 2982260 -44.0 atccatatttATGCTGTTTCCGACCTGAcacctgcgtg nd [APIORCISFBSCS], [BPP] [5]
proximal AraC-arabinose activator araEp 2982265 2982281 -65.0 acgacatgtcGCAGCAATTTAATCCATAtttatgctgt nd [APIORCISFBSCS], [BPP] [5]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CRP-cAMP activator araEp 2982292 2982313 -94.5 cttaatttgaAAATTGGAATATCCATCACATAAcgacatgtcg nd [AIBSCS], [BPP] [5]


Transcription unit       
Name: ygeA
Gene(s): ygeA   Genome Browser M3D Gene expression COLOMBOS
Note(s): A potential RNA G-quadruplex structure, formed by guanine-rich sequences located in the coding sequence region of the gene, was identified for ygeA. This structure could regulate the expression of the gene, as observed for hemL gene expression 31964733.
Evidence: [ICWHO] Inferred computationally without human oversight
[LTED] Length of transcript experimentally determined
Reference(s): [3] Stringer AM., et al., 2014


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -21.6 2980724 2980757 ctgatttcacGGGCCGGATGTGCTGTACATCCGGCCCTTTTTTcgttaataga
  terminator -6.5 2982214 2982239 acctgacaccTGCGTGAGTTGTTCACGTATTTTTTcactatgtct
  anti-terminator -7.4 2980747 2980777 aagttgagaaATATCGGCGTCTGATTTCACGGGCCGGATGtgctgtacat
  anti-terminator -7.1 2982231 2982265 tttaatccatATTTATGCTGTTTCCGACCTGACACCTGCGTGAGttgttcacgt
  anti-anti-terminator -9.0 2980765 2980795 aaactgatggCAGGCGAGAAGTTGAGAAATATCGGCGTCTgatttcacgg
  anti-anti-terminator -4.99 2982255 2982282 acgacatgtcGCAGCAATTTAATCCATATTTATGCTGtttccgacct
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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