Detail Information

Basic Information:


  VIRBase ID:  

VHID00389420

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6061

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART20-3p:           HDAC4:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART20-3p HDAC4
miRBase
Accession/Entrez ID		 MIMAT0003720 9759
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - AHO3//BDMR//HA6116//HD4//HDAC-4//HDAC-A//HDACA

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR HDAC4
chr2:240050161(-) A-I      intronic
chr2:240050142(-) A-I      intronic
chr2:240220780(-) A-I      intronic
chr2:240220794(-) A-I      intronic
chr2:240220816(-) A-I      intronic
chr2:240127977(-) A-I      intronic
chr2:240050139(-) A-I      intronic
chr2:240272305(-) A-I      intronic
chr2:240127832(-) A-I      intronic
chr2:240220806(-) A-I      intronic
chr2:240241965(-) A-I      intronic
chr2:240269370(-) A-I      intronic
chr2:240269388(-) A-I      intronic
chr2:240269404(-) A-I      intronic
chr2:240127884(-) A-I      intronic
chr2:240127779(-) A-I      intronic
chr2:240220789(-) A-I      intronic
chr2:240272398(-) A-I      intronic
chr2:239977366(-) A-I      intronic
chr2:239977369(-) A-I      intronic
chr2:239977399(-) A-I      intronic
chr2:240049964(-) A-I      intronic
chr2:240050125(-) A-I      intronic
chr2:240050138(-) A-I      intronic
chr2:240306200(-) A-I      intronic
chr2:240306190(-) A-I      intronic
chr2:240306092(-) A-I      intronic
chr2:240269377(-) A-I      intronic
chr2:240289457(-) A-I      intronic
chr2:240269483(-) A-I      intronic
chr2:240267158(-) A-I      intronic
chr2:240267052(-) A-I      intronic
chr2:240295366(-) A-I      intronic
chr2:240304426(-) A-I      intronic
chr2:240267241(-) A-I      intronic
chr2:240269348(-) A-I      intronic
chr2:240050217(-) A-I      intronic
chr2:240119665(-) A-I      intronic
chr2:240011164(-) A-I      intronic
chr2:240267163(-) A-I      intronic
chr2:240269325(-) A-I      intronic
chr2:240220702(-) A-I      intronic
chr2:240269490(-) A-I      intronic
chr2:240050113(-) A-I      intronic
chr2:240295337(-) A-I      intronic
chr2:240269389(-) A-I      intronic
chr2:240267040(-) A-I      intronic
chr2:240269374(-) A-I      intronic
chr2:240100143(-) A-I      intronic
chr2:240011161(-) A-I      intronic
chr2:240050221(-) A-I      intronic
chr2:239977165(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED HDAC4
chr2:240269321(-) A-I intron -    15342557
chr2:240269325(-) A-I intron -    15342557
chr2:240269374(-) A-I intron -    15342557
chr2:240269377(-) A-I intron -    15342557
chr2:240269638(-) A-I intron -    15342557
chr2:240269751(-) A-I intron -    15342557
chr2:240050217(-) A-G intron -    22484847
chr2:240121629(-) A-C intron -    22484847
chr2:240269377(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase HDAC4
chr2:239970875-239970876(-) m6A 3'UTR       24981863
chr2:239970884-239970885(-) m6A 3'UTR       24981863
chr2:239970932-239970933(-) m6A 3'UTR       24981863
chr2:239974022-239974023(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22608085
chr2:239974044-239974045(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974062-239974063(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974185-239974186(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974191-239974192(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974196-239974197(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974201-239974202(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974214-239974215(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974222-239974223(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974264-239974265(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974337-239974338(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22575960//22608085
chr2:239974384-239974385(-) m6A 3'UTR       24284625//24981863//27773535//22575960//22608085
chr2:239974399-239974400(-) m6A 3'UTR       24284625//24981863//27773535//22575960//22608085
chr2:239974427-239974428(-) m6A 3'UTR       24284625//25456834//24981863//27773535//27371828//22575960//22608085
chr2:239974541-239974542(-) m6A 3'UTR       24284625//25456834//24981863//27371828//27773536//22575960//22608085
chr2:239974549-239974550(-) m6A 3'UTR       24284625//25456834//24981863//27371828//27773536//22575960//22608085
chr2:239974570-239974571(-) m6A 3'UTR       24284625//25456834//24981863//27371828//27773536//22575960//22608085
chr2:239974577-239974578(-) m6A 3'UTR       24284625//25456834//24981863//27371828//27773536//22575960//22608085
chr2:239974675-239974676(-) m6A 3'UTR       24284625//25456834//24981863//27371828//27773536//22575960
chr2:239974730-239974731(-) m6A 3'UTR       24284625//24981863//27371828
chr2:240016211-240016212(-) m6A intron       24284625//22575960
chr2:240033364-240033365(-) m6A CDS//exon       27371828
chr2:240036751-240036752(-) m6A CDS//exon       27371828
chr2:240036899-240036900(-) m6A CDS//exon       24981863//27371828//27773536
chr2:240048155-240048156(-) m6A CDS//exon       -
chr2:240048193-240048194(-) m6A CDS//exon       -
chr2:240048329-240048330(-) m6A CDS//exon       24284625
chr2:240056109-240056110(-) m6A CDS//exon       24284625
chr2:240056321-240056322(-) m6A CDS//exon       24284625
chr2:240061460-240061461(-) m6A CDS//exon       24284625
chr2:240098128-240098129(-) m6A CDS//exon       24981863//27371828//27773536
chr2:240098211-240098212(-) m6A CDS//exon       24284625//24981863//27371828//27773536
chr2:240108276-240108277(-) m6A exon//intron       27371828
chr2:240108284-240108285(-) m6A exon//intron       27371828
chr2:240111706-240111707(-) m6A 5'UTR//CDS//exon       27371828//27773536
chr2:240111718-240111719(-) m6A 5'UTR//CDS//exon       27371828//27773536
chr2:240259314-240259315(-) Gm intron       -

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate HDAC4
Chromatin HCC cell line (HepG2)|K562 cells     -
Cytosol HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Related Drug Information:


Resource Symbol Drug Name PubChem ID
RNAactDrug ebv-miR-BART20-3p
Crizotinib       11626560

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART20-3p
Interactor2: HDAC4

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence cRep//miRanda//PARalyzer//PITA//Rep//Targetscan
Support Database RepTar//ViRBase//VIRmiRNA//VmiReg

References:


PMID 22100165 Target region 3'UTR
Source RepTar//ViRBase//VIRmiRNA//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells Interactor2 expression None
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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