Detail Information

Basic Information:


  VIRBase ID:  

VHID00398428

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART9-5p:           TRIM4:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART9-5p TRIM4
miRBase
Accession/Entrez ID		 MIMAT0004816 89122
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - RNF87

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TRIM4
chr7:99492228(-) A-I      intronic
chr7:99502437(-) A-I      intronic
chr7:99502579(-) A-I      intronic
chr7:99504999(-) A-I      intronic
chr7:99503644(-) A-I      intronic
chr7:99490828(-) A-I      intronic
chr7:99512495(-) A-I      intronic
chr7:99503523(-) A-I      intronic
chr7:99490881(-) A-I      intronic
chr7:99507650(-) A-I      intronic
chr7:99504387(-) A-I      intronic
chr7:99503576(-) A-I      intronic
chr7:99504846(-) A-I      intronic
chr7:99490628(-) A-I      intronic
chr7:99512722(-) A-I      intronic
chr7:99490830(-) A-I      intronic
chr7:99511883(-) A-I      intronic
chr7:99512509(-) A-I      intronic
chr7:99504813(-) A-I      intronic
chr7:99512529(-) A-I      intronic
chr7:99492178(-) A-I      intronic
chr7:99492227(-) A-I      intronic
chr7:99512626(-) A-I      intronic
chr7:99504336(-) A-I      intronic
chr7:99510054(-) A-I      intronic
chr7:99504879(-) A-I      intronic
chr7:99502420(-) A-I      intronic
chr7:99507453(-) A-I      intronic
chr7:99504936(-) A-I      intronic
chr7:99507418(-) A-I      intronic
chr7:99511987(-) A-I      intronic
chr7:99507554(-) A-I      intronic
chr7:99507458(-) A-I      intronic
chr7:99504970(-) A-I      intronic
chr7:99505022(-) A-I      intronic
chr7:99492120(-) A-I      intronic
chr7:99515259(-) A-I      intronic
chr7:99507493(-) A-I      intronic
chr7:99504417(-) A-I      intronic
chr7:99507477(-) A-I      intronic
chr7:99512706(-) A-I      intronic
chr7:99512500(-) A-I      intronic
chr7:99507524(-) A-I      intronic
chr7:99490627(-) A-I      intronic
chr7:99504838(-) A-I      intronic
chr7:99502392(-) A-I      intronic
chr7:99504359(-) A-I      intronic
chr7:99502398(-) A-I      intronic
chr7:99512700(-) A-I      intronic
chr7:99497511(-) A-I      intronic
chr7:99502489(-) A-I      intronic
chr7:99504096(-) A-I      intronic
chr7:99490778(-) A-I      intronic
chr7:99490615(-) A-I      intronic
chr7:99507534(-) A-I      intronic
chr7:99504843(-) A-I      intronic
chr7:99504412(-) A-I      intronic
chr7:99512714(-) A-I      intronic
chr7:99492243(-) A-I      intronic
chr7:99507519(-) A-I      intronic
chr7:99492123(-) A-I      intronic
chr7:99503602(-) A-I      intronic
chr7:99503511(-) A-I      intronic
chr7:99503681(-) A-I      intronic
chr7:99512462(-) A-I      intronic
chr7:99504770(-) A-I      intronic
chr7:99502533(-) A-I      intronic
chr7:99511891(-) A-I      intronic
chr7:99504463(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED TRIM4
chr7:99504070(-) A-G intron -    22484847
chr7:99504757(-) A-C intron -    22484847
chr7:99504770(-) A-G intron -    22484847
chr7:99504837(-) A-G intron -    22484847
chr7:99504838(-) A-G intron -    22484847
chr7:99504843(-) A-G intron -    22484847
chr7:99504878(-) A-G intron -    22484847
chr7:99504879(-) A-G intron -    22484847
chr7:99510056(-) T-C intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TRIM4
chr7:99489985-99489986(-) m6A CDS//intron       27773535
chr7:99490151-99490152(-) m6A CDS//intron       24284625//24981863//27773535//27371828//22608085
chr7:99490219-99490220(-) m6A CDS//intron       24284625//24981863//27773535//27371828//22608085
chr7:99490251-99490252(-) m6A CDS//intron       24981863//27773535//22608085
chr7:99490331-99490332(-) m6A CDS//intron       27773535
chr7:99490347-99490348(-) m6A CDS//intron       27773535
chr7:99490359-99490360(-) m6A CDS//intron       27773535
chr7:99498792-99498793(-) m6A 3'UTR//intron       27773535
chr7:99498806-99498807(-) m6A 3'UTR//intron       27773535
chr7:99498814-99498815(-) m6A 3'UTR//intron       27773535
chr7:99498914-99498915(-) m6A 3'UTR//intron       24981863//27773535//22608085
chr7:99498954-99498955(-) m6A 3'UTR//intron       24284625//24981863//27773535//22608085
chr7:99498962-99498963(-) m6A 3'UTR//intron       24284625//24981863//27773535//22608085
chr7:99499005-99499006(-) m6A 3'UTR//intron       24284625//24981863//27773535//22608085
chr7:99499118-99499119(-) m6A 3'UTR//intron       24284625//24981863//27773535//22608085
chr7:99499179-99499180(-) m6A 3'UTR//intron       24981863//27773535
chr7:99499194-99499195(-) m6A 3'UTR//intron       24981863//27773535
chr7:99499312-99499313(-) m6A 3'UTR//intron       27773535
chr7:99499344-99499345(-) m6A 3'UTR//intron       27773535
chr7:99499488-99499489(-) m6A 3'UTR//intron       27773535
chr7:99499499-99499500(-) m6A 3'UTR//intron       27773535
chr7:99499556-99499557(-) m6A 3'UTR//intron       24284625//24981863//27773535
chr7:99499575-99499576(-) m6A 3'UTR//intron       24284625//24981863//27773535
chr7:99499596-99499597(-) m6A 3'UTR//intron       24284625//24981863//27773535
chr7:99499635-99499636(-) m6A 3'UTR//intron       24981863//27773535
chr7:99499688-99499689(-) m6A 3'UTR//intron       24209618//27773535
chr7:99499751-99499752(-) m6A 3'UTR//intron       27773535
chr7:99499769-99499770(-) m6A CDS//intron       27773535
chr7:99499774-99499775(-) m6A CDS//intron       27773535
chr7:99499782-99499783(-) m6A CDS//intron       27773535
chr7:99500888-99500889(-) m6A CDS       27773535
chr7:99506278-99506279(-) m6A CDS//exon       24981863//27773535
chr7:99506288-99506289(-) m6A CDS//exon       24981863//27773535
chr7:99506298-99506299(-) m6A CDS//exon       24981863//27773535
chr7:99506337-99506338(-) m6A CDS//exon       24981863//27773535
chr7:99506358-99506359(-) m6A CDS//exon       24981863//27773535
chr7:99516675-99516676(-) m6A CDS       27371828//27773536
chr7:99516962-99516963(-) m6A CDS       27371828//27773536
chr7:99516974-99516975(-) m6A CDS       27371828//27773536
chr7:99517010-99517011(-) m6A CDS       27371828//27773536
chr7:99517050-99517051(-) m6A 5'UTR       24981863//27371828//27773536
chr7:99517155-99517156(-) m6A 5'UTR       24981863
chr7:99517169-99517170(-) m6A 5'UTR       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate TRIM4
Chromatin K562 cells     -
Cytosol K562 cells     -
Exosome Blood     -
Membrane K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART9-5p
Interactor2: TRIM4

Evidence Support:


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

References:


PMID 22100165 Target region 3'UTR
Source ViRBase//VIRmiRNA//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells Interactor2 expression Downregulation
Description Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.

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