RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: mfd
Gene(s): mfd   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: mfdp2
+1: 1173992
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 28
Sequence: tgtcgattacggataatgaacagcattgcttatcagagatatgcccccatatgttgaggcAtatcctaacgagaatctgac
                          -35                     -10       +1                   
Note(s): A σ32-dependent promoter was suggested to be located upstream of mfd Wade JT,2006 but it is unknown whether one of the two promoters transcribing the gene (mfdp1 or mfdp2) is the same as the σ32 promoter. An overlapping of sigma factors, σ32/σ70, was observed in some promoters Wade JT,2006
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Salgado H, et al., 2012
[2] Stanley LK., et al., 2003


Transcription unit       
Name: mfd
Gene(s): mfd   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: mfdp1
+1: 1174028
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 64
Sequence: atcgccccagccggggcgattcaatttgctaaaccatgtcgattacggataatgaacagcAttgcttatcagagatatgcc
                          -35                   -10         +1                   
Note(s): A σ32-dependent promoter was suggested to be located upstream of mfd Wade JT,2006, but it is unknown whether one of the two promoters transcribing the gene (mfdp1 or mfdp2) is the same as the σ32 promoter. An overlapping of σ factors, σ32/σ70, was observed in some promoters Wade JT,2006.
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [3] Ogasawara H., et al., 2005
[1] Salgado H, et al., 2012
[2] Stanley LK., et al., 2003


Evidence    

 [CV(RS-EPT-CBR)] cross validation(RS-EPT-CBR)

 [CV(TIM)] cross validation(TIM)

 [HIPP] Human inference of promoter position

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [TIM] Transcription initiation mapping


Reference(s)    

 [1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [2] Stanley LK., Savery NJ., 2003, Characterisation of the Escherichia coli mfd promoter., Arch Microbiol 179(5):381-5

 [3] Ogasawara H., Teramoto J., Yamamoto S., Hirao K., Yamamoto K., Ishihama A., Utsumi R., 2005, Negative regulation of DNA repair gene (uvrA) expression by ArcA/ArcB two-component system in Escherichia coli., FEMS Microbiol Lett 251(2):243-9

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