RegulonDB RegulonDB 10.8: Gene Form
   

ygaY gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ygaY proX ygaZ ygaH TSS_2995 TSS_2995 TSS_2994 TSS_2994 ygaZp8 ygaZp8 TSS_2993 TSS_2993

Gene      
Name: ygaY    Texpresso search in the literature
Synonym(s): ECK2674, ECK2675, G7403, b2680, b2681, ygaX
Type: Pseudo Gene
Genome position(nucleotides): 2808316 --> 2809493 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 54.41
External database links:  
ASAP:
 ABE-0008822
ASAP:
 ABE-0008824
ASAP:
 ABE-0285129
ECHOBASE:
 EB3298
OU-MICROARRAY:
 b2680
OU-MICROARRAY:
 b2681
PortEco:
 ygaX
PortEco:
 ygaY
COLOMBOS: ygaY


Product      
Name: putative transporter YgaY, N-terminal fragment
Sequence: Get amino acid sequence Fasta Format
Isoelectric point: 10.335
Motif(s):
 
Type Positions Sequence
50 -> 70 FIVTAAQLGYAAGLLFLVPLG
10 -> 30 PALIVLMSIATGLAVASNYYA

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005886 - plasma membrane
Note(s): Note(s): ...[more].
Reference(s): [1] Polen T., et al., 2003
[2] Sabina J., et al., 2003
External database links:  
ECOCYC:
 YGAY-MONOMER
ECOLIWIKI:
 b2680
MODBASE:
 P76628
UNIPROT:
 P76628


Operon      
Name: ygaY         
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 TSS_2993 2809569 forward nd [RS-EPT-CBR] [3]
  promoter ygaZp8 2809595 forward Similarity to the consensus
Read more > 		[ICWHO] [4]
  promoter TSS_2994 2809748 forward nd [RS-EPT-CBR] [3]
  promoter TSS_2995 2809756 forward nd [RS-EPT-CBR] [3]


Evidence    

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

 [ICWHO] Inferred computationally without human oversight


Reference(s)    

 [1] Polen T., Rittmann D., Wendisch VF., Sahm H., 2003, DNA microarray analyses of the long-term adaptive response of Escherichia coli to acetate and propionate., Appl Environ Microbiol 69(3):1759-74

 [2] Sabina J., Dover N., Templeton LJ., Smulski DR., Soll D., LaRossa RA., 2003, Interfering with different steps of protein synthesis explored by transcriptional profiling of Escherichia coli K-12., J Bacteriol 185(20):6158-70

 [3] 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.

 [4] 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

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