Basic Information:

  VIRBase ID:  

VHID00321738

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6791

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART7-3p:  MIMAT0003416          RCSD1:  NM_001322923     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART7-3p	RCSD1
miRBase Accession/Entrez ID	MIMAT0003416	92241
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	CAPZIP//MK2S4

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	RCSD1	chr1:167609887(+) A-I      intronic chr1:167627802(+) A-I      intronic chr1:167670790(+) A-I      intronic chr1:167633963(+) A-I      ncRNA chr1:167608855(+) A-I      intronic chr1:167608869(+) A-I      intronic chr1:167635323(+) A-I      intronic chr1:167670669(+) A-I      intronic chr1:167670684(+) A-I      intronic chr1:167608307(+) A-I      intronic chr1:167669698(+) A-I      intronic chr1:167669700(+) A-I      intronic chr1:167670624(+) A-I      intronic chr1:167606023(+) A-I      intronic chr1:167605953(+) A-I      intronic chr1:167671864(+) A-I      intronic chr1:167671869(+) A-I      intronic chr1:167605941(+) A-I      intronic chr1:167670643(+) A-I      intronic chr1:167610888(+) A-I      intronic chr1:167610861(+) A-I      intronic chr1:167670647(+) A-I      intronic chr1:167671873(+) A-I      intronic chr1:167671937(+) A-I      intronic chr1:167670682(+) A-I      intronic chr1:167610816(+) A-I      intronic chr1:167610776(+) A-I      intronic chr1:167608299(+) A-I      intronic chr1:167670743(+) A-I      intronic chr1:167605896(+) A-I      intronic chr1:167610717(+) A-I      intronic chr1:167601003(+) A-I      intronic chr1:167670778(+) A-I      intronic chr1:167610701(+) A-I      intronic chr1:167671895(+) A-I      intronic chr1:167609953(+) A-I      intronic chr1:167671760(+) A-I      intronic chr1:167671761(+) A-I      intronic chr1:167600984(+) A-I      intronic chr1:167600847(+) A-I      intronic chr1:167671777(+) A-I      intronic chr1:167671783(+) A-I      intronic chr1:167600834(+) A-I      intronic chr1:167671815(+) A-I      intronic chr1:167600815(+) A-I      intronic chr1:167608291(+) A-I      intronic chr1:167671840(+) A-I      intronic chr1:167609952(+) A-I      intronic chr1:167608288(+) A-I      intronic chr1:167600802(+) A-I      intronic chr1:167608993(+) A-I      intronic chr1:167600791(+) A-I      intronic chr1:167600785(+) A-I      intronic chr1:167600783(+) A-I      intronic chr1:167613558(+) A-I      intronic chr1:167613566(+) A-I      intronic chr1:167613569(+) A-I      intronic chr1:167613620(+) A-I      intronic chr1:167613665(+) A-I      intronic chr1:167616288(+) A-I      intronic chr1:167616308(+) A-I      intronic chr1:167608912(+) A-I      intronic chr1:167616549(+) A-I      intronic chr1:167627259(+) A-I      intronic chr1:167635178(+) A-I      intronic chr1:167608911(+) A-I      intronic chr1:167608834(+) A-I      intronic chr1:167635284(+) A-I      intronic chr1:167608276(+) A-I      intronic chr1:167635301(+) A-I      intronic chr1:167635310(+) A-I      intronic chr1:167608275(+) A-I      intronic chr1:167649912(+) A-I      intronic chr1:167659790(+) A-I      intronic chr1:167608810(+) A-I      intronic chr1:167659800(+) A-I      intronic chr1:167608360(+) A-I      intronic chr1:167608272(+) A-I      intronic chr1:167608343(+) A-I      intronic chr1:167606075(+) A-I      intronic chr1:167608339(+) A-I      intronic chr1:167664795(+) A-I      intronic chr1:167606070(+) A-I      intronic chr1:167629799(+) A-I      intronic chr1:167609830(+) A-I      intronic chr1:167670606(+) A-I      intronic chr1:167610741(+) A-I      intronic chr1:167669777(+) A-I      intronic chr1:167608419(+) A-I      intronic chr1:167608856(+) A-I      intronic chr1:167610685(+) A-I      intronic chr1:167637286(+) A-I      intronic chr1:167616208(+) A-I      intronic chr1:167670733(+) A-I      intronic chr1:167609866(+) A-I      intronic chr1:167616931(+) A-I      intronic chr1:167609926(+) A-I      intronic chr1:167610800(+) A-I      intronic chr1:167609974(+) A-I      intronic chr1:167610804(+) A-I      intronic chr1:167605989(+) A-I      intronic chr1:167609848(+) A-I      intronic chr1:167609977(+) A-I      intronic chr1:167610780(+) A-I      intronic chr1:167649944(+) A-I      intronic chr1:167610034(+) A-I      intronic chr1:167605875(+) A-I      intronic chr1:167600924(+) A-I      intronic chr1:167670612(+) A-I      intronic chr1:167608793(+) A-I      intronic chr1:167608831(+) A-I      intronic chr1:167610061(+) A-I      intronic chr1:167608794(+) A-I      intronic chr1:167659866(+) A-I      intronic chr1:167670642(+) A-I      intronic chr1:167610779(+) A-I      intronic chr1:167616933(+) A-I      intronic chr1:167670636(+) A-I      intronic chr1:167609880(+) A-I      intronic chr1:167616855(+) A-I      intronic chr1:167616963(+) A-I      intronic chr1:167616869(+) A-I      intronic chr1:167670607(+) A-I      intronic chr1:167608274(+) A-I      intronic chr1:167610727(+) A-I      intronic chr1:167610736(+) A-I      intronic chr1:167627763(+) A-I      intronic chr1:167637266(+) A-I      intronic chr1:167651679(+) A-I      intronic chr1:167600745(+) A-I      intronic chr1:167670804(+) A-I      intronic chr1:167670708(+) A-I      intronic chr1:167613641(+) A-I      intronic chr1:167609810(+) A-I      intronic chr1:167609850(+) A-I      intronic chr1:167670685(+) A-I      intronic chr1:167661780(+) A-I      intronic chr1:167605880(+) A-I      intronic chr1:167609900(+) A-I      intronic chr1:167608374(+) A-I      intronic chr1:167610835(+) A-I      intronic chr1:167609970(+) A-I      intronic chr1:167608409(+) A-I      intronic chr1:167627887(+) A-I      intronic chr1:167670745(+) A-I      intronic chr1:167608333(+) A-I      intronic chr1:167609944(+) A-I      intronic chr1:167606003(+) A-I      intronic chr1:167600823(+) A-I      intronic chr1:167610889(+) A-I      intronic chr1:167670726(+) A-I      intronic chr1:167608456(+) A-I      intronic chr1:167605928(+) A-I      intronic chr1:167670717(+) A-I      intronic chr1:167609948(+) A-I      intronic chr1:167637442(+) A-I      intronic chr1:167608859(+) A-I      intronic chr1:167616209(+) A-I      intronic chr1:167600985(+) A-I      intronic chr1:167670623(+) A-I      intronic chr1:167609838(+) A-I      intronic chr1:167608199(+) A-I      intronic chr1:167610039(+) A-I      intronic chr1:167671896(+) A-I      intronic chr1:167600727(+) A-I      intronic chr1:167613622(+) A-I      intronic chr1:167670672(+) A-I      intronic chr1:167609996(+) A-I      intronic chr1:167609914(+) A-I      intronic chr1:167671941(+) A-I      intronic chr1:167608200(+) A-I      intronic chr1:167610805(+) A-I      intronic chr1:167608191(+) A-I      intronic chr1:167600786(+) A-I      intronic chr1:167670604(+) A-I      intronic chr1:167608375(+) A-I      intronic chr1:167616246(+) A-I      intronic chr1:167608830(+) A-I      intronic chr1:167616166(+) A-I      intronic chr1:167610808(+) A-I      intronic chr1:167610709(+) A-I      intronic chr1:167653956(+) A-I      intronic chr1:167609917(+) A-I      intronic chr1:167610770(+) A-I      intronic chr1:167669781(+) A-I      intronic chr1:167659813(+) A-I      intronic chr1:167601107(+) A-I      intronic chr1:167610772(+) A-I      intronic chr1:167608931(+) A-I      intronic chr1:167610803(+) A-I      intronic chr1:167672649(+) A-I      intronic chr1:167609928(+) A-I      intronic chr1:167670617(+) A-I      intronic chr1:167608786(+) A-I      intronic chr1:167613660(+) A-I      intronic chr1:167608267(+) A-I      intronic chr1:167616564(+) A-I      intronic chr1:167609888(+) A-I      intronic chr1:167600861(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	RCSD1	chr1:167610772(+) A-I intron -    15258596 chr1:167610800(+) A-I intron -    15258596 chr1:167610808(+) A-I intron -    15258596 chr1:167610835(+) A-I intron -    15258596 chr1:167600735(+) C-T intron -    22484847 chr1:167600745(+) A-G intron -    22484847 chr1:167600786(+) A-G intron -    22484847 chr1:167600823(+) A-G intron -    22484847 chr1:167600861(+) A-G intron -    22484847 chr1:167605875(+) A-G intron -    22484847 chr1:167605880(+) A-G intron -    22484847 chr1:167605928(+) A-G intron -    22484847 chr1:167608199(+) A-G intron -    22484847 chr1:167608200(+) A-G intron -    22484847 chr1:167608274(+) A-G intron -    22484847 chr1:167608333(+) A-G intron -    22484847 chr1:167608374(+) A-G intron -    22484847 chr1:167608409(+) A-G intron -    22484847 chr1:167608419(+) A-G intron -    22484847 chr1:167608786(+) A-G intron -    22484847 chr1:167608793(+) A-G intron -    22484847 chr1:167608794(+) A-G intron -    22484847 chr1:167608830(+) A-G intron -    22484847 chr1:167608831(+) A-G intron -    22484847 chr1:167608856(+) A-G intron -    22484847 chr1:167608859(+) A-G intron -    22484847 chr1:167608931(+) A-G intron -    22484847 chr1:167609810(+) A-G intron -    22484847 chr1:167609838(+) A-G intron -    22484847 chr1:167609848(+) A-G intron -    22484847 chr1:167609888(+) A-G intron -    22484847 chr1:167609900(+) A-G intron -    22484847 chr1:167609914(+) A-G intron -    22484847 chr1:167609917(+) A-G intron -    22484847 chr1:167609948(+) A-G intron -    22484847 chr1:167609974(+) A-G intron -    22484847 chr1:167610034(+) A-G intron -    22484847 chr1:167610039(+) A-G intron -    22484847 chr1:167610685(+) A-G intron -    22484847 chr1:167610709(+) A-G intron -    22484847 chr1:167610727(+) A-G intron -    22484847 chr1:167610741(+) A-G intron -    22484847 chr1:167610770(+) A-G intron -    22484847 chr1:167610772(+) A-G intron -    22484847 chr1:167610779(+) A-G intron -    22484847 chr1:167610780(+) A-G intron -    22484847 chr1:167610800(+) A-G intron -    22484847 chr1:167610803(+) A-G intron -    22484847 chr1:167610804(+) A-G intron -    22484847 chr1:167610805(+) A-G intron -    22484847 chr1:167610808(+) A-G intron -    22484847 chr1:167610835(+) A-G intron -    22484847 chr1:167613622(+) A-G intron -    22484847 chr1:167613641(+) A-G intron -    22484847 chr1:167613660(+) A-G intron -    22484847 chr1:167616564(+) A-G intron -    22484847 chr1:167616869(+) A-G intron -    22484847 chr1:167616931(+) A-G intron -    22484847 chr1:167616933(+) A-G intron -    22484847 chr1:167627763(+) A-G intron -    22484847 chr1:167627887(+) A-G intron -    22484847 chr1:167629712(+) G-T intron -    22484847 chr1:167637266(+) A-G intron -    22484847 chr1:167637286(+) A-G intron -    22484847 chr1:167651410(+) T-C intron -    22484847 chr1:167659813(+) A-G intron -    22484847 chr1:167661780(+) A-G intron -    22484847 chr1:167669781(+) A-G intron -    22484847 chr1:167670604(+) A-G intron -    22484847 chr1:167670606(+) A-G intron -    22484847 chr1:167670607(+) A-G intron -    22484847 chr1:167670612(+) A-G intron -    22484847 chr1:167670617(+) A-G intron -    22484847 chr1:167670623(+) A-G intron -    22484847 chr1:167670636(+) A-G intron -    22484847 chr1:167670672(+) A-G intron -    22484847 chr1:167670685(+) A-G intron -    22484847 chr1:167670717(+) A-G intron -    22484847 chr1:167670726(+) A-G intron -    22484847 chr1:167670733(+) A-G intron -    22484847 chr1:167670745(+) A-G intron -    22484847 chr1:167671919(+) G-A intron -    22484847 chr1:167671941(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	RCSD1	chr1:167599565-167599566(+) m6A 5'UTR//exon       27371828 chr1:167599591-167599592(+) m6A 5'UTR//exon       27371828 chr1:167599658-167599659(+) m6A 5'UTR//exon       27371828 chr1:167634264-167634265(+) m6A exon//intron       - chr1:167653141-167653142(+) m6A CDS       - chr1:167653151-167653152(+) m6A CDS       - chr1:167653167-167653168(+) m6A CDS       - chr1:167654671-167654672(+) m6A CDS//intron       - chr1:167654686-167654687(+) m6A CDS//intron       - chr1:167654724-167654725(+) m6A CDS//intron       - chr1:167663394-167663395(+) m6A CDS       - chr1:167666399-167666400(+) m6A CDS       - chr1:167666409-167666410(+) m6A CDS       - chr1:167666548-167666549(+) m6A CDS       25456834//27371828 chr1:167666556-167666557(+) m6A CDS       25456834//27371828 chr1:167666596-167666597(+) m6A CDS       25456834//27371828 chr1:167666615-167666616(+) m6A CDS       25456834//27371828 chr1:167666719-167666720(+) m6A CDS       24209618//25456834//27371828 chr1:167666844-167666845(+) m6A CDS       25456834//27773535//27371828 chr1:167666850-167666851(+) m6A CDS       25456834//27773535//27371828 chr1:167666866-167666867(+) m6A CDS       25456834//27773535//27371828 chr1:167666902-167666903(+) m6A CDS       27371828 chr1:167666970-167666971(+) m6A CDS       27371828 chr1:167667013-167667014(+) m6A CDS       27371828 chr1:167667034-167667035(+) m6A CDS       27371828 chr1:167673919-167673920(+) m6A CDS       27371828 chr1:167673936-167673937(+) m6A 3'UTR       - chr1:167673970-167673971(+) m6A 3'UTR       - chr1:167674066-167674067(+) m6A 3'UTR       25456834 chr1:167674121-167674122(+) m6A 3'UTR       25456834 chr1:167674141-167674142(+) m6A 3'UTR       25456834 chr1:167674175-167674176(+) m6A 3'UTR       - chr1:167674194-167674195(+) m6A 3'UTR       - chr1:167674205-167674206(+) m6A 3'UTR       - chr1:167674405-167674406(+) m6A 3'UTR       - chr1:167674426-167674427(+) m6A 3'UTR       - chr1:167674439-167674440(+) m6A 3'UTR       - chr1:167674458-167674459(+) m6A 3'UTR       - chr1:167674476-167674477(+) m6A 3'UTR       - chr1:167674485-167674486(+) m6A 3'UTR       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	ebv-miR-BART7-3p	Exosome Jurkat-derived T cell line (J77cl20)     21505438
	RCSD1	Chromatin K562 cells     - Cytosol K562 cells     - Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART7-3p
Interactor2: RCSD1

Evidence Support:

Weak-Evidence	HITS-CLIP//PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//PITA//RNAHybrid//Targetscan
Support Database	ViRBase//VIRmiRNA//VmiReg

References:

[1]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.

[2]PMID	22473208	Target region	3'UTR
Source	ViRBase//VIRmiRNA//VmiReg	Interactor1 expression	None
Tissue or cell line	Jijoye cells	Interactor2 expression	Downregulation
Description	Our HITS-CLIP data yield 1185 human 3'UTRs targeted by members of the miR-17~92 cluster in Jijoye cells. Comparison to the 1664 3'UTRs targeted by EBV miRNAs reveals 740 shared genes (44% of EBV targets and 62% of miR-17~92 targets; Figure 6B and Supplementary Table 7). Thus, EBV miRNAs co-target a majority of miR-17~92 regulated mRNAs, which are assigned to a variety of pathways, most notably regulating transcription, apoptosis, and the cell cycle (Figure 6C). Similarly, other abundant immunologically relevant miRNAs, 142-3p and miR-155, co-target with EBV miRNAs a large fraction of their Ago-bound 3'UTRs, representing ~60% of the targets for each of these host miRNAs (Supplementary Figure 5).