Basic Information:

  VIRBase ID:  

VHID00350193

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART13-3p:  MIMAT0003424          C4orf46:  NM_001008393     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART13-3p	C4orf46
miRBase Accession/Entrez ID	MIMAT0003424	201725
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	RCDG1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	C4orf46	chr4:159591304(-) A-I      intronic chr4:159591313(-) A-I      intronic chr4:159591300(-) A-I      intronic chr4:159591340(-) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	C4orf46	chr4:159590014-159590015(-) m6A 3'UTR       27773535 chr4:159590036-159590037(-) m6A 3'UTR       27773535 chr4:159590104-159590105(-) m6A 3'UTR//exon       24981863//27773535 chr4:159590129-159590130(-) m6A 3'UTR//exon       24981863//27773535 chr4:159590150-159590151(-) m6A 3'UTR//exon       24981863//27773535 chr4:159590186-159590187(-) m6A 3'UTR//exon       27773535 chr4:159590228-159590229(-) m6A 3'UTR//exon       27773535 chr4:159590279-159590280(-) m6A 3'UTR//exon       27773535 chr4:159590385-159590386(-) m6A 3'UTR//exon       27773535 chr4:159590412-159590413(-) m6A 3'UTR//exon       24981863 chr4:159590451-159590452(-) m6A 3'UTR//exon       24981863 chr4:159590460-159590461(-) m6A 3'UTR//exon       24981863 chr4:159590541-159590542(-) m6A 3'UTR//exon       27773535 chr4:159590580-159590581(-) m6A 3'UTR//exon       27773535 chr4:159590776-159590777(-) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr4:159590807-159590808(-) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr4:159590857-159590858(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085 chr4:159590899-159590900(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085 chr4:159592778-159592779(-) Cm CDS//intron       - chr4:159592801-159592802(-) m6A CDS//intron       22575960 chr4:159593008-159593009(-) m6A 5'UTR//intron       27371828 chr4:159593072-159593073(-) m6A 5'UTR//intron       25456834//24981863 chr4:159593084-159593085(-) m6A 5'UTR//intron       25456834//24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	C4orf46	Exosome Blood     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART13-3p
Interactor2: C4orf46

Evidence Support:

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

References:

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