Basic Information:

  VIRBase ID:  

VHID00420972

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART22:  MIMAT0010132          RAP2C:  NM_001271187     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART22	RAP2C
miRBase Accession/Entrez ID	MIMAT0010132	57826
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	RAP2C	chrX:131342288(-) A-I      intronic chrX:131344490(-) A-I      intronic chrX:131344485(-) A-I      intronic chrX:131344484(-) A-I      intronic chrX:131342168(-) A-I      intronic chrX:131344499(-) A-I      intronic chrX:131344548(-) A-I      intronic chrX:131344551(-) A-I      intronic chrX:131344464(-) A-I      intronic chrX:131342240(-) A-I      intronic chrX:131342229(-) A-I      intronic chrX:131342219(-) A-I      intronic chrX:131342200(-) A-I      intronic chrX:131342170(-) A-I      intronic chrX:131342197(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	RAP2C	chrX:131344650(-) A-I intron -    22327324 chrX:131344608(-) A-I intron -    21960545

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	RAP2C	chrX:131339456-131339457(-) m6A 3'UTR       24284625//24209618//24981863//27773535//22575960//22608085 chrX:131339536-131339537(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//27773535//22575960//22608085 chrX:131339551-131339552(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085 chrX:131339573-131339574(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131339609-131339610(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348253-131348254(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348282-131348283(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348314-131348315(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22608085 chrX:131348384-131348385(-) m6A CDS//exon       24284625//24981863//27371828//22608085 chrX:131351115-131351116(-) m6A 5'UTR//CDS//exon       24284625//24981863//27371828//22575960//22608085 chrX:131351126-131351127(-) m6A 5'UTR//CDS//exon       24284625//24981863//27371828//22575960//22608085 chrX:131351156-131351157(-) m6A 5'UTR//CDS//exon       24284625//24981863//27773535//27371828//22575960//22608085 chrX:131351217-131351218(-) m6A CDS//intron       24284625//24981863//27773535//27371828//22575960//22608085 chrX:131351299-131351300(-) m6A 5'UTR//intron       24284625//24981863//27773535//22608085 chrX:131351612-131351613(-) Y 5'UTR//intron       26075521 chrX:131351799-131351800(-) m6A 5'UTR//exon//intron       27371828//27773536 chrX:131352018-131352019(-) m6A 5'UTR//intron       24209618//27371828//27773536

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	RAP2C	Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)     -

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART22
Interactor2: RAP2C

Evidence Support:

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