Basic Information:

  VIRBase ID:  

VHID00397325

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART9-5p:  MIMAT0004816          RAD21:  NM_006265     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART9-5p	RAD21
miRBase Accession/Entrez ID	MIMAT0004816	5885
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	CDLS4//hHR21//HR21//HRAD21//MCD1//MGS//NXP1//SCC1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	RAD21	chr8:117881793(-) A-I      intronic chr8:117881790(-) A-I      intronic chr8:117880413(-) A-I      intronic chr8:117880405(-) A-I      intronic chr8:117865521(-) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	RAD21	chr8:117858650-117858651(-) m6A 3'UTR       24981863 chr8:117858666-117858667(-) m6A 3'UTR       24981863 chr8:117859237-117859238(-) m6A 3'UTR       26404942 chr8:117859789-117859790(-) m6A CDS       27773535 chr8:117859861-117859862(-) m6A CDS       24981863//27773535//27371828 chr8:117859868-117859869(-) m6A CDS       24981863//27773535//27371828 chr8:117859914-117859915(-) m6A CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960 chr8:117861210-117861211(-) m6A 5'UTR//CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960 chr8:117861218-117861219(-) m6A 5'UTR//CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960 chr8:117861242-117861243(-) Am 5'UTR//CDS       - chr8:117861306-117861307(-) m6A 5'UTR//intron       25456834//24981863//28052920//27773535//27371828//27773536//22575960 chr8:117861644-117861645(-) m6A 5'UTR//intron       24981863 chr8:117861704-117861705(-) m6A 5'UTR//intron       24981863 chr8:117862916-117862917(-) m6A CDS       24981863//28052920 chr8:117862952-117862953(-) m6A CDS       24981863//28052920 chr8:117863090-117863091(-) m6A 5'UTR//intron       24981863 chr8:117864213-117864214(-) m6A 5'UTR//CDS       24981863//27773535 chr8:117864275-117864276(-) m6A 5'UTR//CDS       24981863//27773535 chr8:117864375-117864376(-) m6A 5'UTR//intron       24981863//27773535 chr8:117864822-117864823(-) m6A CDS       27773535 chr8:117869002-117869003(-) m6A CDS       22575960 chr8:117870619-117870620(-) m6A CDS//exon       26404942//22575960 chr8:117875450-117875451(-) Y CDS//exon       25219674 chr8:117886636-117886637(-) m6A 5'UTR//intron       27773536 chr8:117887059-117887060(-) m6A 5'UTR       25456834//24981863 chr8:117887076-117887077(-) m6A 5'UTR       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	RAD21	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART9-5p
Interactor2: RAD21

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	PARalyzer
Support Database	ViRBase//VIRmiRNA

References:

PMID	22100165	Target region	3'UTR
Source	ViRBase//VIRmiRNA	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.