RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: ffh
Gene(s): ffh   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[ICWHO] Inferred computationally without human oversight
Reference(s): [1] Bystrom AS., et al., 1989
[2] Mendoza-Vargas A., et al., 2009
Promoter
Name: ffhp
+1: 2747853
Distance from start of the gene: 58
Sequence: aggtgaacgctgctccaaccgttgcataacaacaaagacgccttcatgttatactgcggcAaaatactgatgatgtgtcgc
Evidence: [CV(RS-EPT-CBR)]
[HTIM]
[RS-EPT-CBR]
Reference(s): [2] Mendoza-Vargas A., et al., 2009
[3] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: gtgaataaaaCAACCGGACCCCATCGAGGAACGGAGTCCGGTGtcatattaaa
Reference(s): [1] Bystrom AS., et al., 1989


Regulation by sRNA    
  Small RNA name (Regulator) Regulation type Mechanism Function Binding Sites Evidence Reference
LeftPos RightPos Sequence (RNA-strand)
  ffs translocation post-transcriptional regulation activator      
Notes: "The provided sequence is that of the RNA strand,i.e. 'U's are showed instead the 'T'"


Evidence    

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

 [HTIM] High-throughput transcription initiation mapping

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


Reference(s)    

 [1] Bystrom AS., von Gabain A., Bjork GR., 1989, Differentially expressed trmD ribosomal protein operon of Escherichia coli is transcribed as a single polycistronic mRNA species., J Mol Biol 208(4):575-86

 [2] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [3] 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.

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