RegulonDB RegulonDB 10.9: Operon Form
   

dinG-ybiB operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: dinG-ybiB
Gene(s): dinG, ybiB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IEP] Inferred from expression pattern
[LTED] Length of transcript experimentally determined
Reference(s): [1] Kaleta C., et al., 2010
[2] Schneider D., et al., 2015
Promoter
Name: dinGp
+1: 833073
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: -3
Sequence: ctgaaaaccgaaaaatgccacaatattggctgtttatacagtatttcaggttttctcatgGcattaaccgccgcgcttaaa
                          -35                  -10          +1                   
Note(s): We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box.
Lewis LK,1992predicted a potential dinG promoter site (-35 and -10 regions) by using three different computational search programs. The putative transcription start site of this promoter overlaps the dinG gene, but the start of the translation of this gene has not been determined.
Evidence: [AIPP]
[HIPP]
[ICWHO]
Reference(s): [3] Huerta AM., et al., 2003
[4] Lewis LK., et al., 1992
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 LexA1 repressor dinGp 833036 833055 -27.5 aatgccacaaTATTGGCTGTTTATACAGTATttcaggtttt nd [AIBSCS], [BPP], [GEA] [4], [5]
Note(s): 1The dinG sequence breaks the pattern of the binding site for the LexA repressor, since it takes the form TTG(N10)CAG instead of CTG(N10)CAG.1The dinG sequence breaks the pattern of the binding site for the LexA repressor, since it takes the form TTG(N10)CAG instead of CTG(N10)CAG.


Transcription unit       
Name: ybiB
Gene(s): ybiB   Genome Browser M3D Gene expression COLOMBOS
Note(s): In conjunction with gene expression analysis, it can be argued that the ybiB and dinG genes form an operon regulated by LexA Kaleta C,2010
Based on crystallization analysis and EMSA, it was determined that YbiB binds to DNA with high affinity. The ybiB gene is under LexA control and is induced by DNA-damaging agents Schneider D,2015.
Evidence: [IHBCE] Inferred by a human based on computational evidence





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