Basic Information:

  VIRBase ID:  

VHID00333406

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART10-3p:  MIMAT0003420          LSM11:  NM_173491     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART10-3p	LSM11
miRBase Accession/Entrez ID	MIMAT0003420	134353
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	LSM11	chr5:157178052(+) A-I      intronic chr5:157181609(+) A-I      intronic chr5:157173716(+) A-I      intronic chr5:157177931(+) A-I      intronic chr5:157178010(+) A-I      intronic chr5:157178042(+) A-I      intronic chr5:157184023(+) A-I      3'UTR chr5:157183990(+) A-I      3'UTR chr5:157185366(+) A-I      3'UTR chr5:157184123(+) A-I      3'UTR chr5:157184086(+) A-I      3'UTR chr5:157184016(+) A-I      3'UTR chr5:157185357(+) A-I      3'UTR chr5:157183964(+) A-I      3'UTR chr5:157183956(+) A-I      3'UTR chr5:157184131(+) A-I      3'UTR chr5:157185343(+) A-I      3'UTR chr5:157184180(+) A-I      3'UTR chr5:157184013(+) A-I      3'UTR chr5:157184009(+) A-I      3'UTR chr5:157185375(+) A-I      3'UTR chr5:157173797(+) A-I      intronic chr5:157183921(+) A-I      3'UTR chr5:157185311(+) A-I      3'UTR chr5:157185294(+) A-I      3'UTR chr5:157184012(+) A-I      3'UTR chr5:157183959(+) A-I      3'UTR chr5:157185216(+) A-I      3'UTR chr5:157184014(+) A-I      3'UTR chr5:157184059(+) A-I      3'UTR chr5:157185302(+) A-I      3'UTR chr5:157184095(+) A-I      3'UTR chr5:157185151(+) A-I      3'UTR chr5:157185319(+) A-I      3'UTR chr5:157185261(+) A-I      3'UTR chr5:157185323(+) A-I      3'UTR chr5:157183920(+) A-I      3'UTR chr5:157183988(+) A-I      3'UTR chr5:157184063(+) A-I      3'UTR chr5:157185223(+) A-I      3'UTR chr5:157185376(+) A-I      3'UTR chr5:157185192(+) A-I      3'UTR chr5:157185336(+) A-I      3'UTR chr5:157185388(+) A-I      3'UTR chr5:157184080(+) A-I      3'UTR chr5:157185252(+) A-I      3'UTR chr5:157183912(+) A-I      3'UTR chr5:157185227(+) A-I      3'UTR chr5:157173830(+) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	LSM11	chr5:157181954-157181955(+) m6A CDS       24284625//22608085 chr5:157181994-157181995(+) m6A CDS       24284625//25456834//24981863//22608085 chr5:157182089-157182090(+) m6A CDS       24284625//25456834//24981863//22608085 chr5:157182098-157182099(+) m6A CDS       24284625//25456834//24981863//22608085 chr5:157182437-157182438(+) m6A 3'UTR       24981863 chr5:157183239-157183240(+) m6A 3'UTR       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	LSM11	Exosome Blood     - Nucleoplasm K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART10-3p
Interactor2: LSM11

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.