RegulonDB RegulonDB 10.7: Gene Form
   

yciV gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yciQ yciV yciO trpL TrpR TrpR TrpR Cis-reg; leader anti-anti-terminator terminator TSS_1703 (cluster) TSS_1703 (cluster) TSS_1702 TSS_1702 yciVp yciVp trpLp trpLp

Gene      
Name: yciV    Texpresso search in the literature
Synonym(s): ECK1260, G6634, b1266, trpH
Genome position(nucleotides): 1323220 --> 1324101 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
54.08
External database links:  
ASAP:
ABE-0004252
ECHOBASE:
EB4005
OU-MICROARRAY:
b1266
PORTECO:
trpH
REGULONDB:
b1266
STRING:
511145.b1266
M3D: yciV
COLOMBOS: yciV
PortEco: b1266


Product      
Name: RNA/ssDNA 5'→3' exonuclease
Synonym(s): RNase AM, TrpH, YciV
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 32.58
Isoelectric point: 6.868
Motif(s):
 
Type Positions Sequence
11 -> 115 DLHSHTTASDGCLTPEALVHRAVEMRVGTLAITDHDTTAAIAPAREEISRSGLALNLIPGVEISTVWENHEIHIVGLNIDITHPLMCEFLAQQTERRNQRAQLIA

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.2 - degradation of macromolecules --> 1.2.1 - RNA
  1 - metabolism --> 1.2 - degradation of macromolecules --> 1.2.2 - DNA
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003824 - catalytic activity
GO:0004518 - nuclease activity
GO:0004527 - exonuclease activity
GO:0016787 - hydrolase activity
GO:0046872 - metal ion binding
GO:0008252 - nucleotidase activity
GO:0000166 - nucleotide binding
GO:0030145 - manganese ion binding
GO:0035312 - 5'-3' exodeoxyribonuclease activity
GO:0004534 - 5'-3' exoribonuclease activity
biological_process GO:0006259 - DNA metabolic process
GO:0016311 - dephosphorylation
GO:0090305 - nucleic acid phosphodiester bond hydrolysis
GO:0090503 - RNA phosphodiester bond hydrolysis, exonucleolytic
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
G6634-MONOMER
ECOLIWIKI:
b1266
INTERPRO:
IPR003141
INTERPRO:
IPR004013
INTERPRO:
IPR016195
MODBASE:
P77766
PFAM:
PF02811
PRIDE:
P77766
PRODB:
PRO_000024122
PROTEINMODELPORTAL:
P77766
REFSEQ:
NP_415782
SMART:
SM00481
SMR:
P77766
UNIPROT:
P77766


Operon      
Name: yciVOQ         
Operon arrangement:
Transcription unit        Promoter
 


RNA cis-regulatory element    
Attenuation: Translational


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_1702 1323345 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_1703 (cluster) 1326296 forward For this promoter, there
Read more >
[RS-EPT-CBR] [1]


Evidence    

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



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.


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