RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: paaABCDEFGHIJK
Gene(s): paaA, paaB, paaC, paaD, paaE, paaF, paaG, paaH, paaI, paaJ, paaK   Genome Browser M3D Gene expression COLOMBOS
Note(s): Some, but not all, E. coli K-12 strains lack the ability to utilize phenylacetate; E. coli strains MG1655 and W exhibit utilization, although E. coli C does not exhibit utilization due to deletion of a large fragment that includes the paa region Ferrandez A,1998.
Evidence: [BTEI] Boundaries of transcription experimentally identified
[IEP] Inferred from expression pattern
[ITC] Inferred through co-regulation
[PM] Polar mutation
Reference(s): [1] Ferrandez A., et al., 1998
Promoter
Name: paaAp
+1: 1453865
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 62
Sequence: atccgtcacagttcaaacatacaaaatttgtgattttacttaactattgtgtaactttcaTaaaacaatgtgattcgtgtt
                   -35                       -10            +1                   
Evidence: [HIPP]
[TIM]
Reference(s): [1] Ferrandez A., et al., 1998
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 CRP-cAMP1 activator paaAp 1453796 1453817 -58.5 tataaaaataGGGTGCGAAATCCGTCACAGTTcaaacataca nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote IHF1 activator paaAp 1453744 1453756 -115.0 gcgatctgtaTAGCAACTGCGGAaaacattaat nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PaaX repressor paaAp 1453875 1453913 30.0 taaaacaatgTGATTCGTGTTTTTAATTAATTCACGAAAACTGGAATCGtaaaggtgat nd [APIORCISFBSCS], [BCE], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM] [3], [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote SlyA activator paaAp 1453682 1453693 -177.5 ttgctaatagTTAAATCGCGAAtcataaaaag nd [AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [2]
proximal SlyA activator paaAp 1453785 1453796 -74.5 aaataatgatTTATAAAAATAGggtgcgaaat nd [AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [2]
proximal SlyA activator paaAp 1453840 1453851 -19.5 atttgtgattTTACTTAACTATtgtgtaactt nd [AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [2]
Note(s): 1This site of CRP binding is also used to regulate the divergent paaZp promoter.1This site of IHF binding is also used to regulate the divergent paaZp promoter.2This site of IHF binding is also used to regulate the divergent paaZp promoter.
4This site of CRP binding is also used to regulate the divergent paaZp promoter.


Transcription unit       
Name: paaJ
Gene(s): paaJ   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IEP] Inferred from expression pattern
Reference(s): [5] Li Z., et al., 2019
Promoter
Name: paaJp3
+1: 1460644
Distance from start of the gene: 249
Sequence: gaccgtcactgcacaaatgcttaacggtcatcaaagttgccacggcgggcagctattttcActggctgatactgcctttgc
Evidence: [RE]
[TIM]
Reference(s): [5] Li Z., et al., 2019


Transcription unit       
Name: paaJ
Gene(s): paaJ   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IEP] Inferred from expression pattern
Reference(s): [5] Li Z., et al., 2019
Promoter
Name: paaJp2
+1: 1460771
Distance from start of the gene: 122
Sequence: acgattgattttttgcgtccaggctttgccggagacaccttaactgctactgcgcaggtaCgtcatcagggcaagcaaacc
Evidence: [RE]
[TIM]
Reference(s): [5] Li Z., et al., 2019


Transcription unit       
Name: paaJ
Gene(s): paaJ   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IEP] Inferred from expression pattern
Reference(s): [5] Li Z., et al., 2019
Promoter
Name: paaJp
+1: 1460801
Distance from start of the gene: 92
Sequence: ggagacaccttaactgctactgcgcaggtacgtcatcagggcaagcaaaccggtgtttacGacatcgaaattgttaaccaa
Evidence: [RE]
[TIM]
Reference(s): [5] Li Z., et al., 2019





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