Detail Information

Basic Information:


  VIRBase ID:  

VHID00408559

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART4-3p:           HMGCS1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART4-3p HMGCS1
miRBase
Accession/Entrez ID		 MIMAT0009204 3157
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - HMGCS

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR HMGCS1
chr5:43311395(-) A-I      intronic
chr5:43305627(-) A-I      intronic
chr5:43305369(-) A-I      intronic
chr5:43305361(-) A-I      intronic
chr5:43305360(-) A-I      intronic
chr5:43305200(-) A-I      intronic
chr5:43305629(-) A-I      intronic
chr5:43305221(-) A-I      intronic
chr5:43300837(-) A-I      intronic
chr5:43305204(-) A-I      intronic
chr5:43307371(-) A-I      intronic
chr5:43307370(-) A-I      intronic
chr5:43307283(-) A-I      intronic
chr5:43307269(-) A-I      intronic
chr5:43307265(-) A-I      intronic
chr5:43305790(-) A-I      intronic
chr5:43305654(-) A-I      intronic
chr5:43305628(-) A-I      intronic
chr5:43311281(-) A-I      intronic
chr5:43307378(-) A-I      intronic
chr5:43307379(-) A-I      intronic
chr5:43305186(-) A-I      intronic
chr5:43307342(-) A-I      intronic
chr5:43311175(-) A-I      intronic
chr5:43309510(-) A-I      intronic
chr5:43307464(-) A-I      intronic
chr5:43311321(-) A-I      intronic
chr5:43311209(-) A-I      intronic
chr5:43309614(-) A-I      intronic
chr5:43307337(-) A-I      intronic
chr5:43311264(-) A-I      intronic
chr5:43305261(-) A-I      intronic
chr5:43309506(-) A-I      intronic
chr5:43311170(-) A-I      intronic
chr5:43309470(-) A-I      intronic
chr5:43293937(-) A-I      intronic
chr5:43305185(-) A-I      intronic
chr5:43309574(-) A-I      intronic
chr5:43309498(-) A-I      intronic
chr5:43309480(-) A-I      intronic
chr5:43292233(-) A-I      intronic
chr5:43305266(-) A-I      intronic
chr5:43297865(-) A-I      intronic
chr5:43293948(-) A-I      intronic
chr5:43305267(-) A-I      intronic
chr5:43305870(-) A-I      intronic
chr5:43305116(-) A-I      intronic
chr5:43305709(-) A-I      intronic
chr5:43297700(-) A-I      intronic
chr5:43309617(-) A-I      intronic
chr5:43311414(-) A-I      intronic
chr5:43309395(-) A-I      intronic
chr5:43311359(-) A-I      intronic
chr5:43299711(-) A-I      intronic
chr5:43309538(-) A-I      intronic
chr5:43309515(-) A-I      intronic
chr5:43311168(-) A-I      intronic
chr5:43309449(-) A-I      intronic
chr5:43305789(-) A-I      intronic
chr5:43309419(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED HMGCS1
chr5:43291288(-) T-C exon CDS    21725310
chr5:43297956(-) C-T intron -    22484847
chr5:43299711(-) A-G intron -    22484847
chr5:43300904(-) C-T intron -    22484847
chr5:43305116(-) A-G intron -    22484847
chr5:43305281(-) A-G intron -    22484847
chr5:43305348(-) C-T intron -    22484847
chr5:43305772(-) A-G intron -    22484847
chr5:43305789(-) A-G intron -    22484847
chr5:43305870(-) A-G intron -    22484847
chr5:43309395(-) A-G intron -    22484847
chr5:43309419(-) A-G intron -    22484847
chr5:43309474(-) A-G intron -    22484847
chr5:43309498(-) A-G intron -    22484847
chr5:43309506(-) A-G intron -    22484847
chr5:43309615(-) A-G intron -    22484847
chr5:43309617(-) A-G intron -    22484847
chr5:43311168(-) A-G intron -    22484847
chr5:43311359(-) A-G intron -    22484847
chr5:43311413(-) A-G intron -    22484847
chr5:43311414(-) A-G intron -    22484847
chr5:43294359(-) T-C intron -    22484847
chr5:43294366(-) C-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase HMGCS1
chr5:43290632-43290633(-) m6A 3'UTR       24981863
chr5:43290640-43290641(-) m6A 3'UTR       24981863
chr5:43291211-43291212(-) m6A 3'UTR       -
chr5:43291238-43291239(-) m6A CDS       -
chr5:43291268-43291269(-) m6A CDS       -
chr5:43291289-43291290(-) m6A CDS       -
chr5:43292588-43292589(-) m6A CDS       -
chr5:43292602-43292603(-) m6A CDS       -
chr5:43294877-43294878(-) m6A CDS//exon       26404942
chr5:43294893-43294894(-) m6A CDS//exon       26404942
chr5:43294945-43294946(-) m6A CDS//exon       26404942
chr5:43298751-43298752(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr5:43298781-43298782(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr5:43298787-43298788(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate HMGCS1
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus Colon cancer cells     24393600
Nucleus HCC cell line (HepG2)|K562 cells     -
Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART4-3p
Interactor2: HMGCS1

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence miRanda//PARalyzer//Targetscan
Support Database ViRBase//VmiReg

References:


PMID 22291592 Target region 3'UTR
Source ViRBase//VmiReg Interactor1 expression None
Tissue or cell line EF3D-AGO2 cells//LCL35 cells//LCL-BAC cells//LCL-BAC-D1 cells//LCL-BAC-D3 cells Interactor2 expression None
Description We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).

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