Basic Information:

  VIRBase ID:  

VHID00361527

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART16:  MIMAT0003714          SCARB2:  NM_001204255     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART16	SCARB2
miRBase Accession/Entrez ID	MIMAT0003714	950
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	AMRF//CD36L2//EPM4//HLGP85//LGP85//LIMP-2//LIMPII//SR-BII

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SCARB2	chr4:77111405(-) A-I      intronic chr4:77113040(-) A-I      intronic chr4:77113062(-) A-I      intronic chr4:77113068(-) A-I      intronic chr4:77113080(-) A-I      intronic chr4:77113103(-) A-I      intronic chr4:77111362(-) A-I      intronic chr4:77113905(-) A-I      intronic chr4:77113961(-) A-I      intronic chr4:77113972(-) A-I      intronic chr4:77104068(-) A-I      intronic chr4:77104052(-) A-I      intronic chr4:77104044(-) A-I      intronic chr4:77111381(-) A-I      intronic chr4:77104043(-) A-I      intronic chr4:77111359(-) A-I      intronic chr4:77111358(-) A-I      intronic chr4:77105878(-) A-I      intronic chr4:77105867(-) A-I      intronic chr4:77105866(-) A-I      intronic chr4:77113948(-) A-I      intronic chr4:77113923(-) A-I      intronic chr4:77113175(-) A-I      intronic chr4:77111861(-) A-I      intronic chr4:77105901(-) A-I      intronic chr4:77105872(-) A-I      intronic chr4:77104038(-) A-I      intronic chr4:77110867(-) A-I      intronic chr4:77115394(-) A-I      intronic chr4:77080712(-) A-I      3'UTR chr4:77080695(-) A-I      3'UTR chr4:77080692(-) A-I      3'UTR chr4:77080683(-) A-I      3'UTR chr4:77080642(-) A-I      3'UTR chr4:77100433(-) A-I      intronic chr4:77110871(-) A-I      intronic chr4:77113197(-) A-I      intronic chr4:77111290(-) A-I      intronic chr4:77110752(-) A-I      intronic chr4:77105852(-) A-I      intronic chr4:77080860(-) A-I      3'UTR chr4:77110732(-) A-I      intronic chr4:77110683(-) A-I      intronic chr4:77113191(-) A-I      intronic chr4:77111344(-) A-I      intronic chr4:77113196(-) A-I      intronic chr4:77102991(-) A-I      intronic chr4:77111438(-) A-I      intronic chr4:77105853(-) A-I      intronic chr4:77111395(-) A-I      intronic chr4:77111435(-) A-I      intronic chr4:77116511(-) A-I      intronic chr4:77102975(-) A-I      intronic chr4:77105928(-) A-I      intronic chr4:77113093(-) A-I      intronic chr4:77105927(-) A-I      intronic chr4:77110880(-) A-I      intronic chr4:77124260(-) A-I      intronic chr4:77102790(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	SCARB2	chr4:77080771(-) A-T exon 3'UTR    21725310 chr4:77115309(-) A-G intron -    22484847 chr4:77102991(-) A-G intron -    22484847 chr4:77103005(-) A-G intron -    22484847 chr4:77110823(-) A-G intron -    22484847 chr4:77111837(-) A-G intron -    22484847 chr4:77113889(-) A-G intron -    22484847 chr4:77113974(-) A-G intron -    22484847 chr4:77116511(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SCARB2	chr4:77082728-77082729(-) m6A 3'UTR       24981863 chr4:77082752-77082753(-) m6A 3'UTR       24981863 chr4:77082800-77082801(-) m6A 3'UTR       24981863//27371828 chr4:77082840-77082841(-) m6A 3'UTR       27371828 chr4:77134591-77134592(-) Gm CDS       - chr4:77134828-77134829(-) m6A 5'UTR       27773536 chr4:77134921-77134922(-) m6A 5'UTR       24981863//27773536 chr4:77134927-77134928(-) m6A 5'UTR       24981863//27773536

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	SCARB2	Cytoplasm Nasopharyngeal carcinoma cells     20498841 Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleus Nasopharyngeal carcinoma cells     20498841 Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART16
Interactor2: SCARB2

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	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.