RegulonDB RegulonDB 11.1: Gene Form
   

tff gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

map rpsB tff ppGpp anti-anti-terminator anti-terminator terminator anti-anti-terminator anti-terminator terminator TSS_323 TSS_323 TSS_322 TSS_322 TSS_321 TSS_321 TSS_320 TSS_320 TSS_319 (cluster) TSS_319 (cluster) TSS_318 TSS_318 TSS_317 TSS_317 rpsBp rpsBp TSS_315 TSS_315 TSS_314 TSS_314 TSS_313 TSS_313 TSS_312 TSS_312 TSS_311 TSS_311 TSS_310 TSS_310

Gene      
Name: tff    Texpresso search in the literature
Synonym(s): ECK0167, G0-8895, b4414, t44
Genome position(nucleotides): 189712 --> 189847
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.74
External database links:  
ASAP:
 ABE-0047239
ECHOBASE:
 EB4502
ECOLIHUB:
 tff
COLOMBOS: tff


Product      
Name: putative small RNA T44
Synonym(s): T44, T44 putative small RNA or attenuator, Tff
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  9 - DNA sites
Gene Ontology Terms (GO)  
Note(s): Note(s): ...[more].
Evidence: [COMP] Inferred by computational analysis
Reference(s): [1] Rivas E., et al., 2001
External database links:  
ECOCYC:
 T44-RNA
ECOLIWIKI:
 b4414


Operon      
Name: tff-rpsB-tsf         
Operon arrangement:
Transcription unit        Promoter
rpsB-tsf


RNA cis-regulatory element    
Attenuation: Translational


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 TSS_310 189471 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_311 189532 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_312 189545 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_313 189553 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_314 189621 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_315 189639 forward nd [RS-EPT-CBR] [2]
  promoter TSS_317 190209 forward nd [RS-EPT-CBR] [2]
  promoter TSS_318 190213 forward nd [RS-EPT-CBR] [2]
  promoter TSS_319 (cluster) 190227 forward nd [RS-EPT-CBR] [2]
  promoter TSS_320 190234 forward nd [RS-EPT-CBR] [2]
  promoter TSS_321 190257 forward nd [RS-EPT-CBR] [2]
  promoter TSS_322 190355 forward nd [RS-EPT-CBR] [2]
  promoter TSS_323 190448 forward nd [RS-EPT-CBR] [2]


Evidence    

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


Reference(s)    

 [1] Rivas E., Klein RJ., Jones TA., Eddy SR., 2001, Computational identification of noncoding RNAs in E. coli by comparative genomics., Curr Biol 11(17):1369-73

 [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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