RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit          
Name: ydhYVWXUT
Gene(s): ydhT, ydhU, ydhX, ydhW, ydhV, ydhY   Genome Browser M3D Gene expression COLOMBOS
Evidence: [LTED] Length of transcript experimentally determined
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Partridge JD., et al., 2008
Promoter
Name: ydhYp
+1: 1754642
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 165
Sequence: tgtaattttaattgataacgatcaatgttaagggctcagaataatcacattattttttctCctaaccataaaggattagtt
                            -35               -10           +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[1] Partridge JD., et al., 2008
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 FNR activator ydhYp 1754678 1754691 -42.5 tgtaattttaATTGATAACGATCAAtgttaagggc nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NarL-phosphorylated repressor ydhYp 1754625 1754632 15.0 cctaaccataAAGGATTAgtttatcggc nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
proximal NarL-phosphorylated repressor ydhYp 1754634 1754641 6.0 attttttctcCTAACCATaaaggattag nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
proximal NarL-phosphorylated repressor ydhYp 1754655 1754661 -16.0 agggctcagaATAATCACattatttttt nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
proximal NarL-phosphorylated4 repressor ydhYp 1754681 1754687 -42.0 attttaattgATAACGATcaatgttaag nd [APIORCISFBSCS], [GEA] [1]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal NarP-phosphorylated repressor ydhYp 1754625 1754632 15.0 cctaaccataAAGGATTAgtttatcggc nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
proximal NarP-phosphorylated repressor ydhYp 1754634 1754641 6.0 attttttctcCTAACCATaaaggattag nd [APIORCISFBSCS], [BPP], [GEA], [SM] [1]
Note(s): 4Although this site (-42 heptamer) had significant contribution in in vivo assays, no clear protection by NarL was detected in DNase footprint analyses. However, this suggests that there are other factors in vivo that lead to occupation of the -42 heptamer by NarL in the presence of nitrate Partridge JD,2008.2Although this site (-42 heptamer) had significant contribution in in vivo assays, no clear protection by NarL was detected in DNase footprint analyses. However, this suggests that there are other factors in vivo that lead to occupation of the -42 heptamer by NarL in the presence of nitrate Partridge JD,2008.


Transcription unit       
Name: ydhXUT
Gene(s): ydhT, ydhU, ydhX   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight


Transcription unit       
Name: ydhYVW
Gene(s): ydhW, ydhV, ydhY   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight





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