RegulonDB RegulonDB 10.10: Operon Form
   

xerD-dsbC-recJ-prfB-lysS operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: xerD-dsbC-recJ-prfB-lysS
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: dsbC
Gene(s): dsbC   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: dsbCp
+1: 3038834
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 12
Sequence: accgagcgtctgcggcaacttcatcaacagcatcacccgcgggcgtgatgtctgaaaagaAcgggaagatttatgaagaaa
                            -35                    -10      +1                   
Evidence: [APIORCISFBSCS]
[HIPP]
[ICWHO]
[TIM]
Reference(s): [1] Dartigalongue C., et al., 2001
[2] Huerta AM., et al., 2003
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
remote CpxR-phosphorylated activator dsbCp 3039184 3039198 -357.5 tgccgttaggTGAAGAGGCGGTTTActggctggaa nd [GEA], [APIORCISFBSCS] [1]
remote CpxR-phosphorylated activator dsbCp 3039219 3039233 -391.5 acgggtcattGGTAAAGGCAACAAAgagcgtctgg nd [GEA], [APIORCISFBSCS] [1]


Transcription unit       
Name: dsbC-recJ-prfB
Gene(s): prfB, recJ, dsbC   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 prfB and recJ . This structure could regulate the expression of the genes, as observed for hemL gene expression Shao X, Zhang W, Umar MI, Wong HY, Seng Z, Xie Y, Zhang Y, Yang L, Kwok CK, Deng X,2020.
Evidence: [ITCR] Inferred through co-regulation
Reference(s): [3] Rhodius VA., et al., 2005
Promoter
Name: dsbCp2
+1: 3039633
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 811
Sequence: ggaaaaaaatctggctgaaaatacgttgaacgcttaccgtcgcgatctgtcaatgatggtGgagtggttgcatcaccgcgg
                            -35                     -10     +1                   
Note(s): This promoter appears to be weakly induced, compared with other induced genes, during the first 15 minutes following σE induction; after 15 minutes, it is drastically decreased. However, its mRNA appears to be very stable Lacoux C,2020.
Evidence: [AIBSCS]
[AIPP]
[ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Rhodius VA., et al., 2005


Transcription unit       
Name: xerD-dsbC-recJ
Gene(s): recJ, dsbC, xerD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
Reference(s): [4] Nonaka G., et al., 2006
Promoter
Name: xerDp2
+1: 3039851
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 108
Sequence: ttctgccgccatttcggtgtaacaggtgctggaaccgtaaaaaagacccatattcataacGtaagcttctcgattctgctg
                              -35             -10           +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
Reference(s): [2] Huerta AM., et al., 2003
[4] Nonaka G., et al., 2006


Transcription unit       
Name: xerD-dsbC-recJ
Gene(s): recJ, dsbC, xerD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
Reference(s): [4] Nonaka G., et al., 2006
Promoter
Name: xerDp
+1: 3039851
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 108
Sequence: ttctgccgccatttcggtgtaacaggtgctggaaccgtaaaaaagacccatattcataacGtaagcttctcgattctgctg
                          -35                    -10        +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
Reference(s): [2] Huerta AM., et al., 2003
[4] Nonaka G., et al., 2006


Transcription unit       
Name: xerD
Gene(s): xerD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight


Transcription unit       





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