Basic Information:

  VIRBase ID:  

VHID00332632

  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          LIN7C:  NM_018362     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART10-3p	LIN7C
miRBase Accession/Entrez ID	MIMAT0003420	55327
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	LIN-7-C//LIN-7C//MALS-3//MALS3//VELI3

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	LIN7C	chr11:27524615(-) A-I      intronic chr11:27525279(-) A-I      intronic chr11:27525199(-) A-I      intronic chr11:27525185(-) A-I      intronic chr11:27526714(-) A-I      intronic chr11:27525314(-) A-I      intronic chr11:27525288(-) A-I      intronic chr11:27525234(-) A-I      intronic chr11:27525231(-) A-I      intronic chr11:27525230(-) A-I      intronic chr11:27526796(-) A-I      intronic chr11:27526767(-) A-I      intronic chr11:27525513(-) A-I      intronic chr11:27525467(-) A-I      intronic chr11:27525403(-) A-I      intronic chr11:27525332(-) A-I      intronic chr11:27525331(-) A-I      intronic chr11:27516825(-) A-I      3'UTR chr11:27525326(-) A-I      intronic chr11:27525198(-) A-I      intronic chr11:27525610(-) A-I      intronic chr11:27525432(-) A-I      intronic chr11:27525509(-) A-I      intronic chr11:27524550(-) A-I      intronic chr11:27517444(-) A-I      3'UTR

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	LIN7C	chr11:27520100-27520101(-) m6A 3'UTR       24981863//27773535 chr11:27520183-27520184(-) m6A 3'UTR       24284625//24981863//27773535//22608085 chr11:27520200-27520201(-) m6A CDS       24284625//24981863//27773535//27371828//22608085 chr11:27520315-27520316(-) m6A CDS       24284625//24209618//24981863//28052920//27773535//27371828//22608085 chr11:27520336-27520337(-) m6A CDS       24284625//24209618//24981863//27773535//27371828//22608085 chr11:27520953-27520954(-) m6A CDS       24284625//24209618//24981863//27773535//27371828//22608085 chr11:27521002-27521003(-) m6A CDS       24284625//24209618//24981863//27773535//27371828//22608085 chr11:27521007-27521008(-) m6A CDS       24209618//24981863//27773535//22608085 chr11:27521048-27521049(-) m6A CDS       24209618//27773535 chr11:27521082-27521083(-) m6A CDS       24209618//27773535 chr11:27523084-27523085(-) m6A CDS//intron       24209618//27773535 chr11:27523091-27523092(-) m6A CDS//intron       24209618//27773535 chr11:27523104-27523105(-) m6A CDS//intron       24209618//27773535 chr11:27523402-27523403(-) m6A CDS       24209618//24981863//27773535//22608085 chr11:27523435-27523436(-) m6A CDS       24209618//24981863//27773535//22608085 chr11:27528281-27528282(-) m6A CDS       24209618//24981863//27773535//22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	LIN7C	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART10-3p
Interactor2: LIN7C

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	miRanda//PARalyzer//PITA//Targetscan
Support Database	ViRBase//VmiReg

References:

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