RegulonDB RegulonDB 10.7: Gene Form
   

ydfE gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

intQ ydfE insD-7 ydfD ynfP dicB TSS_1869 TSS_1869

Gene      
Name: ydfE    Texpresso search in the literature
Synonym(s): ECK1571, EG11304, b1577
Type: Pseudo Gene
Genome position(nucleotides): 1650078 --> 1650998 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
49.73
External database links:  
ASAP:
ABE-0005265
ECHOBASE:
EB1281
ECOO157CYC:
EXOO
ECOO157CYC:
EXOU
ECOO157CYC:
Z1324
OU-MICROARRAY:
b1577
PORTECO:
ydfE
REGULONDB:
b1577
STRING:
316407.85675028
M3D: ydfE
COLOMBOS: ydfE
PortEco: b1577


Product      
Name: Qin prophage; protein YdfE
Sequence: Get amino acid sequence Fasta Format
Isoelectric point: 5.474
Classification:
Multifun Terms (GenProtEC)  
  8 - extrachromosomal --> 8.1 - prophage genes and phage related functions
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
Note(s): Note(s): ...[more].
Reference(s): [1] DeLisa MP., et al., 2001
External database links:  
ECOCYC:
EG11304-MONOMER
ECOLIWIKI:
b1577
ECOO157CYC:
Z1324-MONOMER
ECOO157CYC:
EXOO-MONOMER
ECOO157CYC:
EXOU-MONOMER
PRIDE:
Q47138
PROTEINMODELPORTAL:
Q47138
REFSEQ:
NP_416094
SMR:
Q47138
UNIPROT:
Q47138


Operon      
Name: dicB-ydfDE-insD-7-intQ         
Operon arrangement:
Transcription unit        Promoter
dicB-ydfDE-insD-intQ


Transcriptional Regulation      
Display Regulation             
Repressed by: DicA


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_1869 1651862 reverse 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] DeLisa MP., Wu CF., Wang L., Valdes JJ., Bentley WE., 2001, DNA microarray-based identification of genes controlled by autoinducer 2-stimulated quorum sensing in Escherichia coli., J Bacteriol 183(18):5239-47

 [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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