Basic Information:

  VIRBase ID:  

VHID00301297

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART3-3p:  MIMAT0003411          CDK6:  NM_001259     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART3-3p	CDK6
miRBase Accession/Entrez ID	MIMAT0003411	1021
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	MCPH12//PLSTIRE

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	CDK6	chr7:92441963(-) A-I      intronic chr7:92441245(-) A-I      intronic chr7:92292893(-) A-I      intronic chr7:92441384(-) A-I      intronic chr7:92409909(-) A-I      intronic chr7:92409885(-) A-I      intronic chr7:92409567(-) A-I      intronic chr7:92409513(-) A-I      intronic chr7:92409490(-) A-I      intronic chr7:92292929(-) A-I      intronic chr7:92409489(-) A-I      intronic chr7:92367853(-) A-I      intronic chr7:92304318(-) A-I      intronic chr7:92292932(-) A-I      intronic chr7:92292933(-) A-I      intronic chr7:92361674(-) A-I      intronic chr7:92363285(-) A-I      intronic chr7:92361587(-) A-I      intronic chr7:92292952(-) A-I      intronic chr7:92361529(-) A-I      intronic chr7:92361515(-) A-I      intronic chr7:92292958(-) A-I      intronic chr7:92292968(-) A-I      intronic chr7:92293288(-) A-I      intronic chr7:92293291(-) A-I      intronic chr7:92293333(-) A-I      intronic chr7:92361514(-) A-I      intronic chr7:92356004(-) A-I      intronic chr7:92355997(-) A-I      intronic chr7:92341470(-) A-I      intronic chr7:92377379(-) A-I      intronic chr7:92397419(-) A-I      intronic chr7:92341390(-) A-I      intronic chr7:92340958(-) A-I      intronic chr7:92322004(-) A-I      intronic chr7:92309567(-) A-I      intronic chr7:92309536(-) A-I      intronic chr7:92309132(-) A-I      intronic chr7:92306881(-) A-I      intronic chr7:92306850(-) A-I      intronic chr7:92306847(-) A-I      intronic chr7:92306784(-) A-I      intronic chr7:92306775(-) A-I      intronic chr7:92306749(-) A-I      intronic chr7:92306714(-) A-I      intronic chr7:92306697(-) A-I      intronic chr7:92341338(-) A-I      intronic chr7:92293433(-) A-I      intronic chr7:92294294(-) A-I      intronic chr7:92296590(-) A-I      intronic chr7:92296736(-) A-I      intronic chr7:92296737(-) A-I      intronic chr7:92304317(-) A-I      intronic chr7:92304352(-) A-I      intronic chr7:92292857(-) A-I      intronic chr7:92292797(-) A-I      intronic chr7:92292767(-) A-I      intronic chr7:92363291(-) A-I      intronic chr7:92341058(-) A-I      intronic chr7:92341059(-) A-I      intronic chr7:92341061(-) A-I      intronic chr7:92341309(-) A-I      intronic chr7:92341321(-) A-I      intronic chr7:92367757(-) A-I      intronic chr7:92367774(-) A-I      intronic chr7:92441390(-) A-I      intronic chr7:92367829(-) A-I      intronic chr7:92442013(-) A-I      intronic chr7:92342270(-) A-I      intronic chr7:92280373(-) A-I      intronic chr7:92309097(-) A-I      intronic chr7:92341313(-) A-I      intronic chr7:92309163(-) A-I      intronic chr7:92309292(-) A-I      intronic chr7:92306811(-) A-I      intronic chr7:92341387(-) A-I      intronic chr7:92342422(-) A-I      intronic chr7:92341050(-) A-I      intronic chr7:92341328(-) A-I      intronic chr7:92341353(-) A-I      intronic chr7:92409824(-) A-I      intronic chr7:92341411(-) A-I      intronic chr7:92309205(-) A-I      intronic chr7:92441376(-) A-I      intronic chr7:92391993(-) A-I      intronic chr7:92341443(-) A-I      intronic chr7:92297084(-) A-I      intronic chr7:92304214(-) A-I      intronic chr7:92303256(-) A-I      intronic chr7:92292768(-) A-I      intronic chr7:92382899(-) A-I      intronic chr7:92361481(-) A-I      intronic chr7:92306884(-) A-I      intronic chr7:92431152(-) A-I      intronic chr7:92294378(-) A-I      intronic chr7:92367697(-) A-I      intronic chr7:92294274(-) A-I      intronic chr7:92341051(-) A-I      intronic chr7:92294238(-) A-I      intronic chr7:92441293(-) A-I      intronic chr7:92369367(-) A-I      intronic chr7:92441302(-) A-I      intronic chr7:92341344(-) A-I      intronic chr7:92431064(-) A-I      intronic chr7:92306739(-) A-I      intronic chr7:92294264(-) A-I      intronic chr7:92293331(-) A-I      intronic chr7:92280372(-) A-I      intronic chr7:92392020(-) A-I      intronic chr7:92284363(-) A-I      intronic chr7:92441210(-) A-I      intronic chr7:92296739(-) A-I      intronic chr7:92361669(-) A-I      intronic chr7:92306760(-) A-I      intronic chr7:92309646(-) A-I      intronic chr7:92359205(-) A-I      intronic chr7:92309699(-) A-I      intronic chr7:92341046(-) A-I      intronic chr7:92294372(-) A-I      intronic chr7:92391971(-) A-I      intronic chr7:92409462(-) A-I      intronic chr7:92442012(-) A-I      intronic chr7:92355951(-) A-I      intronic chr7:92369323(-) A-I      intronic chr7:92306892(-) A-I      intronic chr7:92409575(-) A-I      intronic chr7:92341308(-) A-I      intronic chr7:92340974(-) A-I      intronic chr7:92292762(-) A-I      intronic chr7:92410031(-) A-I      intronic chr7:92292852(-) A-I      intronic chr7:92309111(-) A-I      intronic chr7:92283201(-) A-I      intronic chr7:92361586(-) A-I      intronic chr7:92409464(-) A-I      intronic chr7:92306857(-) A-I      intronic chr7:92341354(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	CDK6	chr7:92318639(-) G-A intron -    22484847 chr7:92280321(-) T-C intron -    22484847 chr7:92280328(-) G-A intron -    22484847 chr7:92287266(-) C-G intron -    22484847 chr7:92292756(-) A-G intron -    22484847 chr7:92292762(-) A-G intron -    22484847 chr7:92292768(-) A-G intron -    22484847 chr7:92292771(-) A-G intron -    22484847 chr7:92292852(-) A-G intron -    22484847 chr7:92293306(-) A-G intron -    22484847 chr7:92293331(-) A-G intron -    22484847 chr7:92294238(-) A-G intron -    22484847 chr7:92294264(-) A-G intron -    22484847 chr7:92294268(-) A-G intron -    22484847 chr7:92294269(-) A-G intron -    22484847 chr7:92294274(-) A-G intron -    22484847 chr7:92294282(-) T-C intron -    22484847 chr7:92294372(-) A-G intron -    22484847 chr7:92294378(-) A-G intron -    22484847 chr7:92296739(-) A-G intron -    22484847 chr7:92306739(-) A-G intron -    22484847 chr7:92306760(-) A-G intron -    22484847 chr7:92306857(-) A-G intron -    22484847 chr7:92309097(-) A-G intron -    22484847 chr7:92309111(-) A-G intron -    22484847 chr7:92309131(-) A-G intron -    22484847 chr7:92309292(-) A-G intron -    22484847 chr7:92309618(-) A-G intron -    22484847 chr7:92309624(-) A-G intron -    22484847 chr7:92309634(-) A-G intron -    22484847 chr7:92309646(-) A-G intron -    22484847 chr7:92309669(-) A-G intron -    22484847 chr7:92309699(-) A-G intron -    22484847 chr7:92309707(-) A-G intron -    22484847 chr7:92321576(-) A-C intron -    22484847 chr7:92321577(-) G-T intron -    22484847 chr7:92321580(-) T-C intron -    22484847 chr7:92331565(-) C-A intron -    22484847 chr7:92340974(-) A-G intron -    22484847 chr7:92340989(-) A-G intron -    22484847 chr7:92341046(-) A-G intron -    22484847 chr7:92341049(-) A-G intron -    22484847 chr7:92341050(-) A-G intron -    22484847 chr7:92341075(-) A-G intron -    22484847 chr7:92341078(-) A-G intron -    22484847 chr7:92341085(-) A-G intron -    22484847 chr7:92341308(-) A-G intron -    22484847 chr7:92341313(-) A-G intron -    22484847 chr7:92341335(-) A-G intron -    22484847 chr7:92341344(-) A-G intron -    22484847 chr7:92341353(-) A-G intron -    22484847 chr7:92341387(-) A-G intron -    22484847 chr7:92341443(-) A-G intron -    22484847 chr7:92342377(-) T-G intron -    22484847 chr7:92342422(-) A-G intron -    22484847 chr7:92355951(-) A-G intron -    22484847 chr7:92359192(-) A-G intron -    22484847 chr7:92359205(-) A-G intron -    22484847 chr7:92361481(-) A-G intron -    22484847 chr7:92361586(-) A-G intron -    22484847 chr7:92361669(-) A-G intron -    22484847 chr7:92378531(-) C-T intron -    22484847 chr7:92382899(-) A-G intron -    22484847 chr7:92409462(-) A-G intron -    22484847 chr7:92409463(-) A-G intron -    22484847 chr7:92409464(-) A-G intron -    22484847 chr7:92409466(-) A-G intron -    22484847 chr7:92409575(-) A-G intron -    22484847 chr7:92409824(-) A-G intron -    22484847 chr7:92409907(-) A-G intron -    22484847 chr7:92410031(-) A-G intron -    22484847 chr7:92416499(-) G-T intron -    22484847 chr7:92431064(-) A-G intron -    22484847 chr7:92431152(-) A-G intron -    22484847 chr7:92440305(-) T-C intron -    22484847 chr7:92441210(-) A-G intron -    22484847 chr7:92441293(-) A-G intron -    22484847 chr7:92441302(-) A-G intron -    22484847 chr7:92441376(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CDK6	chr7:92238336-92238337(-) m6A 3'UTR       27773535 chr7:92238382-92238383(-) m6A 3'UTR       27773535 chr7:92238416-92238417(-) m6A 3'UTR       27773535 chr7:92238996-92238997(-) m6A 3'UTR       27773535 chr7:92239020-92239021(-) m6A 3'UTR       27773535 chr7:92239047-92239048(-) m6A 3'UTR       27773535 chr7:92239085-92239086(-) m6A 3'UTR       27773535 chr7:92244214-92244215(-) m6A 3'UTR//exon       - chr7:92244302-92244303(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr7:92244325-92244326(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr7:92244416-92244417(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr7:92244478-92244479(-) m6A CDS//exon       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr7:92244508-92244509(-) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//27371828//22575960//22608085 chr7:92244529-92244530(-) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//27371828//22608085 chr7:92247395-92247396(-) m6A CDS//exon       24284625//24981863//27773535 chr7:92247406-92247407(-) m6A CDS//exon       24284625//24981863//27773535 chr7:92247494-92247495(-) m6A CDS//exon       24284625//27773535 chr7:92331058-92331059(-) Am intron       16381836 chr7:92331065-92331066(-) Cm intron       16381836 chr7:92331066-92331067(-) Cm intron       16381836 chr7:92331068-92331069(-) Cm intron       16381836 chr7:92331074-92331075(-) Gm intron       16381836 chr7:92331075-92331076(-) Am intron       16381836 chr7:92331081-92331082(-) Am intron       16381836 chr7:92462429-92462430(-) m6A CDS       - chr7:92462492-92462493(-) m6A CDS       24284625//27371828//27773536//22575960 chr7:92462741-92462742(-) m6A 5'UTR//exon       24209618//27371828//27773536//22575960 chr7:92462940-92462941(-) m6A 5'UTR//exon       24284625//24209618//24981863//27371828//27773536//22575960 chr7:92462988-92462989(-) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//27773536//22575960 chr7:92464512-92464513(-) m6A exon//intron       25456834 chr7:92464576-92464577(-) m6A exon//intron       24981863 chr7:92464608-92464609(-) m6A exon//intron       24981863 chr7:92465857-92465858(-) m6A 5'UTR       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CDK6	Chromatin HCC cell line (HepG2)|K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol K562 cells     - Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART3-3p
Interactor2: CDK6

Evidence Support:

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

References:

[1]PMID	22100165	Target region	3'UTR
Source	RepTar//ViRBase//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.

[2]PMID	22291592	Target region	3'UTR
Source	RepTar//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	Downregulation
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).