RegulonDB RegulonDB 10.7: Gene Form
   

tpke70 gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

lpxP tpke70 yfdY ypdK terminator lpxPp lpxPp TSS_2670 TSS_2670 yfdYp6 yfdYp6 yfdYp5 yfdYp5

Gene      
Name: tpke70    Texpresso search in the literature
Synonym(s): G0-8906
Type: Phantom Gene
Genome position(nucleotides): 2496194 <-- 2496629 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 49.77
Note(s): Tpke70 is a candiate small RNA locus of approximately 435 nt; Northern blot experiments identified an RNA of 40 nt Rivas E,2001.
Likely functional regions of Tpke70 were identified within the entire 435 nt region; of the predicted mRNA targets, testing by electrophoretic mobility shift assay confirmed an interaction with the mcrA, torT, glnK, and agaS mRNAs Mihailovic MK,2018.
Review: Hershberg R, Altuvia S, Margalit H,2003
External database links:  
PORTECO:
 tpke70
REGULONDB:
 tpke70
M3D: tpke70
COLOMBOS: tpke70
PortEco: tpke70


Operon      
Name: tpke70         
Operon arrangement:
Transcription unit        Promoter
 


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter yfdYp5 2495333 reverse Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter yfdYp6 2495336 reverse Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter TSS_2670 2495493 forward nd [RS-EPT-CBR] [2]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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


Reference(s)    

 [1] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [2] 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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