RegulonDB RegulonDB 10.10: Gene Form
   

ytfA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yjfZ ytfB fklB ytfA TSS_5064 TSS_5064 ytfBp ytfBp TSS_5062 TSS_5062 yjfZp7 yjfZp7 yjfZp8 yjfZp8

Gene      
Name: ytfA    Texpresso search in the literature
Synonym(s): ECK4201, G7863, b4205
Type: Pseudo Gene
Genome position(nucleotides): 4427694 --> 4428095 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
39.05
External database links:  
ASAP:
ABE-0013754
ECHOBASE:
EB2394
ECOLIHUB:
ytfA
ECOLIWIKI:
b4205
OU-MICROARRAY:
b4205
STRING:
316407.85676956
UNIPROT:
P39309
COLOMBOS: ytfA


Product      
Name: putative transcriptional regulator YtfA
Sequence: Get amino acid sequence Fasta Format
Isoelectric point: 7.322
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
G7863-MONOMER
ECOLIWIKI:
b4205
INTERPRO:
IPR036271
PRIDE:
P39309
REFSEQ:
NP_418626
SMR:
P39309
UNIPROT:
P39309


Operon      
Name: ytfA         
Operon arrangement:
Transcription unit        Promoter
ytfA


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 yjfZp8 4427517 reverse nd [ICWHO] [1]
  promoter yjfZp7 4427526 reverse nd [ICWHO] [1]
  promoter TSS_5062 4428742 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_5064 4428908 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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