Basic Information:

  VIRBase ID:  

VHID00416109

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART21-3p:  MIMAT0010131          USP28:  NM_001346263     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART21-3p	USP28
miRBase Accession/Entrez ID	MIMAT0010131	57646
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	USP28	chr11:113708417(-) A-I      intronic chr11:113708416(-) A-I      intronic chr11:113669085(-) A-I      3'UTR chr11:113669074(-) A-I      3'UTR chr11:113669073(-) A-I      3'UTR chr11:113669027(-) A-I      3'UTR chr11:113669025(-) A-I      3'UTR chr11:113669015(-) A-I      3'UTR chr11:113689483(-) A-I      intronic chr11:113708415(-) A-I      intronic chr11:113708461(-) A-I      intronic chr11:113689333(-) A-I      intronic chr11:113689321(-) A-I      intronic chr11:113689106(-) A-I      intronic chr11:113689050(-) A-I      intronic chr11:113689048(-) A-I      intronic chr11:113690509(-) A-I      intronic chr11:113722895(-) A-I      intronic chr11:113689043(-) A-I      intronic chr11:113689042(-) A-I      intronic chr11:113689908(-) A-I      intronic chr11:113689012(-) A-I      intronic chr11:113688971(-) A-I      intronic chr11:113688970(-) A-I      intronic chr11:113688966(-) A-I      intronic chr11:113688926(-) A-I      intronic chr11:113688912(-) A-I      intronic chr11:113688911(-) A-I      intronic chr11:113688909(-) A-I      intronic chr11:113697196(-) A-I      intronic chr11:113687153(-) A-I      intronic chr11:113687093(-) A-I      intronic chr11:113689412(-) A-I      intronic chr11:113682244(-) A-I      intronic chr11:113695627(-) A-I      intronic chr11:113681568(-) A-I      intronic chr11:113681565(-) A-I      intronic chr11:113723017(-) A-I      intronic chr11:113681508(-) A-I      intronic chr11:113681482(-) A-I      intronic chr11:113676878(-) A-I      intronic chr11:113700431(-) A-I      intronic chr11:113689399(-) A-I      intronic chr11:113722822(-) A-I      intronic chr11:113740029(-) A-I      intronic chr11:113681570(-) A-I      intronic chr11:113681593(-) A-I      intronic chr11:113722883(-) A-I      intronic chr11:113723023(-) A-I      intronic chr11:113690476(-) A-I      intronic chr11:113689918(-) A-I      intronic chr11:113726594(-) A-I      intronic chr11:113716375(-) A-I      intronic chr11:113715733(-) A-I      intronic chr11:113702970(-) A-I      intronic chr11:113722811(-) A-I      intronic chr11:113725261(-) A-I      intronic chr11:113700484(-) A-I      intronic chr11:113695620(-) A-I      intronic chr11:113697519(-) A-I      intronic chr11:113722889(-) A-I      intronic chr11:113689870(-) A-I      intronic chr11:113689336(-) A-I      intronic chr11:113689973(-) A-I      intronic chr11:113695614(-) A-I      intronic chr11:113695553(-) A-I      intronic chr11:113697472(-) A-I      intronic chr11:113700464(-) A-I      intronic chr11:113695410(-) A-I      intronic chr11:113695409(-) A-I      intronic chr11:113689539(-) A-I      intronic chr11:113726421(-) A-I      intronic chr11:113732947(-) A-I      intronic chr11:113734284(-) A-I      intronic chr11:113695408(-) A-I      intronic chr11:113690030(-) A-I      intronic chr11:113692999(-) A-I      intronic chr11:113706544(-) A-I      intronic chr11:113715780(-) A-I      intronic chr11:113692992(-) A-I      intronic chr11:113681579(-) A-I      intronic chr11:113716474(-) A-I      intronic chr11:113692980(-) A-I      intronic chr11:113690606(-) A-I      intronic chr11:113690570(-) A-I      intronic chr11:113689581(-) A-I      intronic chr11:113716479(-) A-I      intronic chr11:113716498(-) A-I      intronic chr11:113689547(-) A-I      intronic chr11:113716561(-) A-I      intronic chr11:113689507(-) A-I      intronic chr11:113722780(-) A-I      intronic chr11:113689501(-) A-I      intronic chr11:113722781(-) A-I      intronic chr11:113689500(-) A-I      intronic chr11:113689471(-) A-I      intronic chr11:113697206(-) A-I      intronic chr11:113668973(-) A-I      3'UTR chr11:113693281(-) A-I      intronic chr11:113689932(-) A-I      intronic chr11:113716443(-) A-I      intronic chr11:113725343(-) A-I      intronic chr11:113681449(-) A-I      intronic chr11:113716583(-) A-I      intronic chr11:113709962(-) A-I      intronic chr11:113697256(-) A-I      intronic chr11:113709959(-) A-I      intronic chr11:113703550(-) A-I      intronic chr11:113680498(-) A-I      intronic chr11:113697170(-) A-I      intronic chr11:113725351(-) A-I      intronic chr11:113689887(-) A-I      intronic chr11:113708422(-) A-I      intronic chr11:113690510(-) A-I      intronic chr11:113702999(-) A-I      intronic chr11:113671000(-) A-I      intronic chr11:113693088(-) A-I      intronic chr11:113681574(-) A-I      intronic chr11:113693286(-) A-I      intronic chr11:113739992(-) A-I      intronic chr11:113689920(-) A-I      intronic chr11:113690023(-) A-I      intronic chr11:113716017(-) A-I      intronic chr11:113689038(-) A-I      intronic chr11:113695515(-) A-I      intronic chr11:113695273(-) A-I      intronic chr11:113695278(-) A-I      intronic chr11:113729872(-) A-I      intronic chr11:113689907(-) A-I      intronic chr11:113715903(-) A-I      intronic chr11:113715785(-) A-I      intronic chr11:113690107(-) A-I      intronic chr11:113690538(-) A-I      intronic chr11:113682240(-) A-I      intronic chr11:113678068(-) A-I      intronic chr11:113693235(-) A-I      intronic chr11:113690034(-) A-I      intronic chr11:113690494(-) A-I      intronic chr11:113689435(-) A-I      intronic chr11:113726428(-) A-I      intronic chr11:113743087(-) A-I      intronic chr11:113689869(-) A-I      intronic chr11:113697271(-) A-I      intronic chr11:113689927(-) A-I      intronic chr11:113689461(-) A-I      intronic chr11:113708392(-) A-I      intronic chr11:113726511(-) A-I      intronic chr11:113671693(-) A-I      intronic chr11:113700540(-) A-I      intronic chr11:113700392(-) A-I      intronic chr11:113689526(-) A-I      intronic chr11:113710050(-) A-I      intronic chr11:113735707(-) A-I      intronic chr11:113690108(-) A-I      intronic chr11:113689946(-) A-I      intronic chr11:113708391(-) A-I      intronic chr11:113690114(-) A-I      intronic chr11:113693309(-) A-I      intronic chr11:113689475(-) A-I      intronic chr11:113690544(-) A-I      intronic chr11:113708386(-) A-I      intronic chr11:113726550(-) A-I      intronic chr11:113695544(-) A-I      intronic chr11:113700490(-) A-I      intronic chr11:113682230(-) A-I      intronic chr11:113690580(-) A-I      intronic chr11:113725229(-) A-I      intronic chr11:113734880(-) A-I      intronic chr11:113703048(-) A-I      intronic chr11:113693308(-) A-I      intronic chr11:113723022(-) A-I      intronic chr11:113695591(-) A-I      intronic chr11:113689410(-) A-I      intronic chr11:113708414(-) A-I      intronic chr11:113682408(-) A-I      intronic chr11:113681576(-) A-I      intronic chr11:113681575(-) A-I      intronic chr11:113690014(-) A-I      intronic chr11:113728781(-) A-I      intronic chr11:113697517(-) A-I      intronic chr11:113706546(-) A-I      intronic chr11:113695177(-) A-I      intronic chr11:113735723(-) A-I      intronic chr11:113700383(-) A-I      intronic chr11:113689999(-) A-I      intronic chr11:113700495(-) A-I      intronic chr11:113697186(-) A-I      intronic chr11:113681525(-) A-I      intronic chr11:113700452(-) A-I      intronic chr11:113689434(-) A-I      intronic chr11:113690574(-) A-I      intronic chr11:113722418(-) A-I      intronic chr11:113708432(-) A-I      intronic chr11:113697202(-) A-I      intronic chr11:113720760(-) A-I      intronic chr11:113682247(-) A-I      intronic chr11:113689931(-) A-I      intronic chr11:113689867(-) A-I      intronic chr11:113695178(-) A-I      intronic chr11:113669090(-) A-I      3'UTR

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	USP28	chr11:113689867(-) A-I intron -    15342557 chr11:113689869(-) A-I intron -    15342557 chr11:113689870(-) A-I intron -    15342557 chr11:113689887(-) A-I intron -    15342557 chr11:113689907(-) A-I intron -    15342557 chr11:113689908(-) A-I intron -    15342557 chr11:113689918(-) A-I intron -    15342557 chr11:113689920(-) A-I intron -    15342557 chr11:113689927(-) A-I intron -    15342557 chr11:113689931(-) A-I intron -    15342557 chr11:113689932(-) A-I intron -    15342557 chr11:113689946(-) A-I intron -    15342557 chr11:113689973(-) A-I intron -    15342557 chr11:113690023(-) A-I intron -    15342557 chr11:113690034(-) A-I intron -    15342557 chr11:113690107(-) A-I intron -    15342557 chr11:113690108(-) A-I intron -    15342557 chr11:113690114(-) A-I intron -    15342557 chr11:113690494(-) A-I intron -    15342557 chr11:113690509(-) A-I intron -    15342557 chr11:113690510(-) A-I intron -    15342557 chr11:113690538(-) A-I intron -    15342557 chr11:113690574(-) A-I intron -    15342557 chr11:113690580(-) A-I intron -    15342557 chr11:113668814(-) C-A exon 3'UTR    21725310 chr11:113681574(-) A-G intron -    22484847 chr11:113681575(-) A-G intron -    22484847 chr11:113681576(-) A-G intron -    22484847 chr11:113681579(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	USP28	chr11:113669842-113669843(-) m6A 3'UTR//exon       24284625//24981863//27773535//22608085 chr11:113670099-113670100(-) m6A 3'UTR//CDS//exon       27773535 chr11:113672239-113672240(-) m6A 3'UTR//CDS//exon       27773535 chr11:113675439-113675440(-) m6A 3'UTR//CDS       24981863 chr11:113675624-113675625(-) m6A 3'UTR//CDS       24981863 chr11:113675635-113675636(-) m6A 3'UTR//CDS       24981863 chr11:113675722-113675723(-) m6A 3'UTR//CDS       24981863 chr11:113691604-113691605(-) m6A intron       22608085 chr11:113691619-113691620(-) m6A intron       22608085 chr11:113691656-113691657(-) m6A intron       22608085 chr11:113691954-113691955(-) m6A intron       22608085 chr11:113691962-113691963(-) m6A intron       22608085 chr11:113692063-113692064(-) m6A intron       25456834//22608085 chr11:113692070-113692071(-) m6A intron       25456834//22608085 chr11:113692159-113692160(-) m6A intron       22608085 chr11:113692189-113692190(-) m6A intron       22608085 chr11:113697957-113697958(-) m6A 3'UTR//CDS       27773535 chr11:113725034-113725035(-) Y CDS//exon//intron       26075521 chr11:113745469-113745470(-) m6A 5'UTR//intron       22608085 chr11:113745503-113745504(-) m6A 5'UTR//intron       22608085 chr11:113746252-113746253(-) m6A 5'UTR//exon       24981863//27773536

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	USP28	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)     - Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)     -

Related Drug Information:

Resource	Symbol	Drug Name	PubChem ID
RNAactDrug	ebv-miR-BART21-3p	Crizotinib       11626560

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART21-3p
Interactor2: USP28

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//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.