Basic Information:

  VIRBase ID:  

VHID00284774

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.8925

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BHRF1-2-3p:  MIMAT0000997          KDM4B:  NM_001370094     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BHRF1-2-3p	KDM4B
miRBase Accession/Entrez ID	MIMAT0000997	23030
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	JMJD2B//TDRD14B

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	KDM4B	chr19:4990155(+) A-I      intronic chr19:5139033(+) A-I      intronic chr19:5105709(+) A-I      intronic chr19:5105683(+) A-I      intronic chr19:4990180(+) A-I      intronic chr19:4990186(+) A-I      intronic chr19:4990203(+) A-I      intronic chr19:5006704(+) A-I      intronic chr19:5006705(+) A-I      intronic chr19:5006734(+) A-I      intronic chr19:5105513(+) A-I      intronic chr19:5105556(+) A-I      intronic chr19:5105578(+) A-I      intronic chr19:5030182(+) A-I      intronic chr19:5029047(+) A-I      intronic chr19:4987190(+) A-I      intronic chr19:4976102(+) A-I      intronic chr19:5021762(+) A-I      intronic chr19:5021744(+) A-I      intronic chr19:5021697(+) A-I      intronic chr19:5021544(+) A-I      intronic chr19:5021451(+) A-I      intronic chr19:5021331(+) A-I      intronic chr19:5110280(+) A-I      intronic chr19:5015627(+) A-I      intronic chr19:4980713(+) A-I      intronic chr19:5044624(+) A-I      intronic chr19:4993238(+) A-I      intronic chr19:5002882(+) A-I      intronic chr19:4976071(+) A-I      intronic chr19:4976101(+) A-I      intronic chr19:4976166(+) A-I      intronic chr19:4976180(+) A-I      intronic chr19:4976181(+) A-I      intronic chr19:4979040(+) A-I      intronic chr19:4979840(+) A-I      intronic chr19:4979842(+) A-I      intronic chr19:5101168(+) A-I      intronic chr19:5101161(+) A-I      intronic chr19:5101139(+) A-I      intronic chr19:5101079(+) A-I      intronic chr19:5101030(+) A-I      intronic chr19:5100661(+) A-I      intronic chr19:5100513(+) A-I      intronic chr19:4979899(+) A-I      intronic chr19:4980103(+) A-I      intronic chr19:5003371(+) A-I      intronic chr19:5003372(+) A-I      intronic chr19:5003398(+) A-I      intronic chr19:5044659(+) A-I      intronic chr19:5003471(+) A-I      intronic chr19:4993721(+) A-I      intronic chr19:5097365(+) A-I      intronic chr19:5097361(+) A-I      intronic chr19:4990280(+) A-I      intronic chr19:4990210(+) A-I      intronic chr19:4990209(+) A-I      intronic chr19:4990160(+) A-I      intronic chr19:5003472(+) A-I      intronic chr19:4990081(+) A-I      intronic chr19:4989429(+) A-I      intronic chr19:4989410(+) A-I      intronic chr19:4989374(+) A-I      intronic chr19:5006529(+) A-I      intronic chr19:5044685(+) A-I      intronic chr19:5089919(+) A-I      intronic chr19:5084906(+) A-I      intronic chr19:5084727(+) A-I      intronic chr19:5084702(+) A-I      intronic chr19:5084696(+) A-I      intronic chr19:5044658(+) A-I      intronic chr19:5061615(+) A-I      intronic chr19:5008038(+) A-I      intronic chr19:5007799(+) A-I      intronic chr19:5006725(+) A-I      intronic chr19:5006637(+) A-I      intronic chr19:5110342(+) A-I      intronic chr19:4982785(+) A-I      intronic chr19:4982760(+) A-I      intronic chr19:4990281(+) A-I      intronic chr19:4991415(+) A-I      intronic chr19:4992522(+) A-I      intronic chr19:4980552(+) A-I      intronic chr19:5006534(+) A-I      intronic chr19:4980590(+) A-I      intronic chr19:4980601(+) A-I      intronic chr19:4980609(+) A-I      intronic chr19:4980700(+) A-I      intronic chr19:4993244(+) A-I      intronic chr19:4993245(+) A-I      intronic chr19:4993268(+) A-I      intronic chr19:4993433(+) A-I      intronic chr19:4993722(+) A-I      intronic chr19:4993858(+) A-I      intronic chr19:4994328(+) A-I      intronic chr19:4994453(+) A-I      intronic chr19:4995419(+) A-I      intronic chr19:4990136(+) A-I      intronic chr19:4994467(+) A-I      intronic chr19:5149455(+) A-I      intronic chr19:5002855(+) A-I      intronic chr19:4992538(+) A-I      intronic chr19:5110227(+) A-I      intronic chr19:4993157(+) A-I      intronic chr19:5015628(+) A-I      intronic chr19:5030187(+) A-I      intronic chr19:4995473(+) A-I      intronic chr19:4992723(+) A-I      intronic chr19:5021063(+) A-I      intronic chr19:4990181(+) A-I      intronic chr19:4993820(+) A-I      intronic chr19:5110368(+) A-I      intronic chr19:5034034(+) A-I      intronic chr19:5138478(+) A-I      intronic chr19:5100603(+) A-I      intronic chr19:5143283(+) A-I      intronic chr19:4973339(+) A-I      intronic chr19:5101179(+) A-I      intronic chr19:5100578(+) A-I      intronic chr19:5105650(+) A-I      intronic chr19:5140667(+) A-I      intronic chr19:4990163(+) A-I      intronic chr19:4993274(+) A-I      intronic chr19:5029727(+) A-I      intronic chr19:5084048(+) A-I      intronic chr19:5101070(+) A-I      intronic chr19:5002272(+) A-I      intronic chr19:5143073(+) A-I      intronic chr19:4973223(+) A-I      intronic chr19:5054264(+) A-I      intronic chr19:5101440(+) A-I      intronic chr19:5100970(+) A-I      intronic chr19:4973300(+) A-I      intronic chr19:5084964(+) A-I      intronic chr19:4980104(+) A-I      intronic chr19:4975759(+) A-I      intronic chr19:5026446(+) A-I      intronic chr19:4990222(+) A-I      intronic chr19:5124859(+) A-I      intronic chr19:4990861(+) A-I      intronic chr19:4994407(+) A-I      intronic chr19:5015356(+) A-I      intronic chr19:4975743(+) A-I      intronic chr19:5100652(+) A-I      intronic chr19:5034065(+) A-I      intronic chr19:4993206(+) A-I      intronic chr19:5097331(+) A-I      intronic chr19:5110292(+) A-I      intronic chr19:5002944(+) A-I      intronic chr19:5023991(+) A-I      intronic chr19:5084926(+) A-I      intronic chr19:5024800(+) A-I      intronic chr19:5034905(+) A-I      intronic chr19:4994159(+) A-I      intronic chr19:4985224(+) A-I      intronic chr19:4976046(+) A-I      intronic chr19:5149409(+) A-I      intronic chr19:4990985(+) A-I      intronic chr19:5044610(+) A-I      intronic chr19:4982157(+) A-I      intronic chr19:4979196(+) A-I      intronic chr19:4978371(+) A-I      intronic chr19:4989683(+) A-I      intronic chr19:4974568(+) A-I      intronic chr19:4990120(+) A-I      intronic chr19:5034014(+) A-I      intronic chr19:5100556(+) A-I      intronic chr19:5023938(+) A-I      intronic chr19:4989442(+) A-I      intronic chr19:4993415(+) A-I      intronic chr19:5146831(+) A-I      intronic chr19:4980126(+) A-I      intronic chr19:4992482(+) A-I      intronic chr19:5100539(+) A-I      intronic chr19:4992598(+) A-I      intronic chr19:4974020(+) A-I      intronic chr19:5124647(+) A-I      intronic chr19:5023828(+) A-I      intronic chr19:5110425(+) A-I      intronic chr19:5139118(+) A-I      intronic chr19:5100615(+) A-I      intronic chr19:5105543(+) A-I      intronic chr19:5021745(+) A-I      intronic chr19:5034060(+) A-I      intronic chr19:5100487(+) A-I      intronic chr19:5084951(+) A-I      intronic chr19:4980673(+) A-I      intronic chr19:5084043(+) A-I      intronic chr19:5139135(+) A-I      intronic chr19:4980564(+) A-I      intronic chr19:5138569(+) A-I      intronic chr19:4973329(+) A-I      intronic chr19:5101031(+) A-I      intronic chr19:5097529(+) A-I      intronic chr19:4973231(+) A-I      intronic chr19:5045501(+) A-I      intronic chr19:5001183(+) A-I      intronic chr19:5029105(+) A-I      intronic chr19:5021453(+) A-I      intronic chr19:5021008(+) A-I      intronic chr19:5101174(+) A-I      intronic chr19:5146818(+) A-I      intronic chr19:4976113(+) A-I      intronic chr19:4994399(+) A-I      intronic chr19:4973380(+) A-I      intronic chr19:5045666(+) A-I      intronic chr19:5138644(+) A-I      intronic chr19:5110435(+) A-I      intronic chr19:5101071(+) A-I      intronic chr19:4980057(+) A-I      intronic chr19:5100689(+) A-I      intronic chr19:4993309(+) A-I      intronic chr19:4992563(+) A-I      intronic chr19:5110385(+) A-I      intronic chr19:4990972(+) A-I      intronic chr19:5101153(+) A-I      intronic chr19:5084991(+) A-I      intronic chr19:5101154(+) A-I      intronic chr19:4980600(+) A-I      intronic chr19:5100644(+) A-I      intronic chr19:5101081(+) A-I      intronic chr19:4975865(+) A-I      intronic chr19:5002851(+) A-I      intronic chr19:5139117(+) A-I      intronic chr19:5101072(+) A-I      intronic chr19:4990150(+) A-I      intronic chr19:4973383(+) A-I      intronic chr19:4993341(+) A-I      intronic chr19:5021786(+) A-I      intronic chr19:4979281(+) A-I      intronic chr19:4994231(+) A-I      intronic chr19:4974156(+) A-I      intronic chr19:5138984(+) A-I      intronic chr19:5060400(+) A-I      intronic chr19:4980615(+) A-I      intronic chr19:4974598(+) A-I      intronic chr19:4975690(+) A-I      intronic chr19:5110220(+) A-I      intronic chr19:4993211(+) A-I      intronic chr19:5045522(+) A-I      intronic chr19:5100532(+) A-I      intronic chr19:5139034(+) A-I      intronic chr19:5042273(+) A-I      intronic chr19:5105577(+) A-I      intronic chr19:4975833(+) A-I      intronic chr19:4974596(+) A-I      intronic chr19:5089940(+) A-I      intronic chr19:4982885(+) A-I      intronic chr19:4994495(+) A-I      intronic chr19:4975629(+) A-I      intronic chr19:5143223(+) A-I      intronic chr19:5021749(+) A-I      intronic chr19:5138642(+) A-I      intronic chr19:4989489(+) A-I      intronic chr19:5006713(+) A-I      intronic chr19:4980535(+) A-I      intronic chr19:5140647(+) A-I      intronic chr19:4976110(+) A-I      intronic chr19:5024862(+) A-I      intronic chr19:5100474(+) A-I      intronic chr19:5039355(+) A-I      intronic chr19:4979973(+) A-I      intronic chr19:5101493(+) A-I      intronic chr19:5097498(+) A-I      intronic chr19:5002035(+) A-I      intronic chr19:4990258(+) A-I      intronic chr19:5110226(+) A-I      intronic chr19:4979956(+) A-I      intronic chr19:5029103(+) A-I      intronic chr19:5097362(+) A-I      intronic chr19:5002825(+) A-I      intronic chr19:5021059(+) A-I      intronic chr19:4987142(+) A-I      intronic chr19:5015404(+) A-I      intronic chr19:4994167(+) A-I      intronic chr19:4989803(+) A-I      intronic chr19:5143259(+) A-I      intronic chr19:5101113(+) A-I      intronic chr19:4979936(+) A-I      intronic chr19:5138563(+) A-I      intronic chr19:4990874(+) A-I      intronic chr19:4980674(+) A-I      intronic chr19:5084051(+) A-I      intronic chr19:4979173(+) A-I      intronic chr19:5101086(+) A-I      intronic chr19:5002555(+) A-I      intronic chr19:4974099(+) A-I      intronic chr19:5149385(+) A-I      intronic chr19:5039368(+) A-I      intronic chr19:5149361(+) A-I      intronic chr19:4973420(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	KDM4B	chr19:5139117(+) A-I intron -    22327324 chr19:4976113(+) A-G intron -    22484847 chr19:4993383(+) A-G intron -    22484847 chr19:5097356(+) A-G intron -    22484847 chr19:5100591(+) A-G intron -    22484847 chr19:5100603(+) A-G intron -    22484847 chr19:5101086(+) A-G intron -    22484847 chr19:5101113(+) A-G intron -    22484847 chr19:5101414(+) A-G intron -    22484847 chr19:5105543(+) A-G intron -    22484847 chr19:5105577(+) A-G intron -    22484847 chr19:5110262(+) A-G intron -    22484847 chr19:5110281(+) A-G intron -    22484847 chr19:5139034(+) A-G intron -    22484847 chr19:5139051(+) A-G intron -    22484847 chr19:5139117(+) A-G intron -    22484847 chr19:5139118(+) A-G intron -    22484847 chr19:5139119(+) A-G intron -    22484847 chr19:5140647(+) A-G intron -    22484847 chr19:5146831(+) A-G intron -    22484847 chr19:5153054(+) C-A intron -    22484847 chr19:5153055(+) T-A intron -    22484847 chr19:5153056(+) C-A intron -    22484847 chr19:5153057(+) C-A intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	KDM4B	chr19:5016334-5016335(+) m6A 5'UTR//intron       24284625 chr19:5032914-5032915(+) m6A CDS       24284625 chr19:5032929-5032930(+) m6A CDS       24284625 chr19:5032980-5032981(+) m6A CDS       24284625 chr19:5077457-5077458(+) m1A CDS//exon       26863196 chr19:5077984-5077985(+) m6A exon//intron       - chr19:5077991-5077992(+) m6A exon//intron       - chr19:5078044-5078045(+) m6A exon//intron       - chr19:5078253-5078254(+) m6A exon//intron       - chr19:5078389-5078390(+) m6A exon//intron       - chr19:5078484-5078485(+) m6A exon//intron       - chr19:5078712-5078713(+) m6A exon//intron       - chr19:5078764-5078765(+) m6A exon//intron       - chr19:5078941-5078942(+) m6A exon//intron       - chr19:5078969-5078970(+) m6A exon//intron       - chr19:5080906-5080907(+) m6A exon//intron       25456834 chr19:5080915-5080916(+) m6A exon//intron       25456834 chr19:5080946-5080947(+) m6A exon//intron       25456834 chr19:5080988-5080989(+) m6A exon//intron       25456834 chr19:5110726-5110727(+) m6A CDS//exon       - chr19:5110741-5110742(+) m6A CDS//exon       - chr19:5111977-5111978(+) m6A 3'UTR//intron       24981863 chr19:5112064-5112065(+) m6A 3'UTR//intron       24981863 chr19:5112253-5112254(+) m6A 3'UTR//intron       24981863 chr19:5112272-5112273(+) m6A 3'UTR//intron       24981863 chr19:5112280-5112281(+) m6A 3'UTR//intron       24981863 chr19:5112292-5112293(+) m6A 3'UTR//intron       24981863 chr19:5112300-5112301(+) m6A 3'UTR//intron       24981863 chr19:5112331-5112332(+) m6A 3'UTR//intron       24981863 chr19:5113332-5113333(+) m6A 3'UTR//intron       24981863 chr19:5119148-5119149(+) m6A CDS//exon//intron       24981863 chr19:5119165-5119166(+) m6A CDS//exon//intron       24981863 chr19:5119182-5119183(+) m6A CDS//exon//intron       24981863 chr19:5119190-5119191(+) Tm CDS//exon//intron       - chr19:5119210-5119211(+) m6A CDS//exon//intron       24209618//25456834//24981863 chr19:5119707-5119708(+) m6A CDS//exon       24209618//25456834//24981863 chr19:5131136-5131137(+) m1A CDS//exon       26863196 chr19:5131459-5131460(+) m6A CDS//exon       - chr19:5131529-5131530(+) m6A CDS//exon       - chr19:5133971-5133972(+) m6A CDS//exon       - chr19:5135479-5135480(+) m6A CDS//exon       24284625 chr19:5135523-5135524(+) m6A CDS//exon       24284625 chr19:5140547-5140548(+) m6A 3'UTR//intron       - chr19:5140569-5140570(+) m6A 3'UTR//intron       - chr19:5140594-5140595(+) m6A 3'UTR//intron       - chr19:5140643-5140644(+) m6A 3'UTR//intron       - chr19:5141021-5141022(+) m6A 3'UTR//intron       25456834 chr19:5141056-5141057(+) m6A 3'UTR//intron       25456834 chr19:5141070-5141071(+) m6A 3'UTR//intron       25456834 chr19:5151442-5151443(+) m6A CDS//exon       24284625//25456834//24981863//22608085 chr19:5151460-5151461(+) m6A CDS//exon       24284625//25456834//24981863//22608085 chr19:5151523-5151524(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr19:5151695-5151696(+) m6A 3'UTR//exon       24209618//25456834//24981863//27371828//22575960//22608085 chr19:5151768-5151769(+) m6A 3'UTR//exon       24209618//25456834//24981863//27371828 chr19:5152002-5152003(+) m6A 3'UTR       - chr19:5152078-5152079(+) m6A 3'UTR       - chr19:5152095-5152096(+) m6A 3'UTR       - chr19:5152531-5152532(+) Cm 3'UTR       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	ebv-miR-BHRF1-2-3p	Exosome K562 cells     24460325
	KDM4B	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol K562 cells     - Exosome Blood     - Membrane K562 cells     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BHRF1-2-3p
Interactor2: KDM4B

Evidence Support:

Strong-Evidence	Dual luciferase reporter assay
Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer
Support Database	RepTar//ViRBase//VmiReg

References:

[1]PMID	23170179	Target region	3'UTR
Source	RepTar//ViRBase	Interactor1 expression	Downregulation
Tissue or cell line	EF3D-AGO2 cells//LCL35 cells//LCL-BAC cells//LCL-BAC-D1 cells//LCL-BAC-D3 cells	Interactor2 expression	None
Description	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.

[2]PMID	22291592	Target region	3'UTR
Source	RepTar//ViRBase//VmiReg	Interactor1 expression	Downregulation
Tissue or cell line	EF3D-AGO2 cells//LCL35 cells//LCL-BAC cells//LCL-BAC-D1 cells//LCL-BAC-D3 cells	Interactor2 expression	None
Description	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.