RegulonDB RegulonDB 10.9: Gene Form
   

ymfA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

potD cobB ycfZ ymfA potC terminator TSS_1456 TSS_1456 ycfZp5 ycfZp5 ycfZp6 ycfZp6 TSS_1455 TSS_1455

Gene      
Name: ymfA    Texpresso search in the literature
Synonym(s): ECK1108, G6579, b1122
Genome position(nucleotides): 1181264 <-- 1181725 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
43.51
External database links:  
ASAP:
ABE-0003786
ECHOBASE:
EB3219
ECOLIHUB:
ymfA
OU-MICROARRAY:
b1122
STRING:
511145.b1122
COLOMBOS: ymfA


Product      
Name: putative inner membrane protein YmfA
Synonym(s): YmfA
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 17.416
Isoelectric point: 9.765
Motif(s):
 
Type Positions Sequence
117 -> 137 FFKWGFIGIMGVIFIAVGLLI
7 -> 27 VFFRIFLGIGLVLILISVVVF

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
biological_process GO:0071978 - bacterial-type flagellum-dependent swarming motility
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
G6579-MONOMER
ECOLIWIKI:
b1122
INTERPRO:
IPR021994
PFAM:
PF12158
PRIDE:
P75962
REFSEQ:
NP_415640
UNIPROT:
P75962


Operon      
Name: ymfA-ycfZ         
Operon arrangement:
Transcription unit        Promoter
ymfA-ycfZ


RNA cis-regulatory element    
Attenuation: Transcriptional


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_1455 1179908 forward nd [RS-EPT-CBR] [1]
  promoter ycfZp6 1181346 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter ycfZp5 1181380 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter TSS_1456 1182741 reverse nd [RS-EPT-CBR] [1]


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] 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.

 [2] 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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