RegulonDB RegulonDB 11.1: Gene Form
   

gadF gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

mdtE gadE gadF FliZ TSS_4128 TSS_4128 mdtEp3 mdtEp3 mdtEp2 mdtEp2 mdtEp1 mdtEp1 TSS_4127 TSS_4127 TSS_4126 TSS_4126

Gene      
Name: gadF    Texpresso search in the literature
Synonym(s): ECK4575, G0-16680, b4718
Genome position(nucleotides): 3658992 --> 3659082
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 47.25
Reference(s): [1] Melamed S., et al., 2016


Product      
Name: small regulatory RNA GadF
Synonym(s): GadF
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:0003729 - mRNA binding
biological_process GO:0050794 - regulation of cellular process
Note(s): Note(s): ...[more].
Evidence: [EXP-IMP] Inferred from mutant phenotype
Reference(s): [1] Melamed S., et al., 2016
External database links:  
ECOCYC:
 RNA0-392


Operon      
Name: gadEF-mdtEF         
Operon arrangement:
Transcription unit        Promoter
gadEF
gadE-mdtEF
gadEF
gadEF-mdtEF
mdtEF
mdtEF
mdtEF


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_4126 3658886 forward nd [RS-EPT-CBR] [2]
  promoter TSS_4127 3658889 forward nd [RS-EPT-CBR] [2]
  promoter TSS_4128 3659216 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] Melamed S., Peer A., Faigenbaum-Romm R., Gatt YE., Reiss N., Bar A., Altuvia Y., Argaman L., Margalit H., 2016, Global Mapping of Small RNA-Target Interactions in Bacteria., Mol Cell 63(5):884-97

 [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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