Basic Information:

  VIRBase ID:  

VHID00348766

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART13-3p:  MIMAT0003424          PDCD4:  NM_145341     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART13-3p	PDCD4
miRBase Accession/Entrez ID	MIMAT0003424	27250
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	H731

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	PDCD4	chr10:112650922(+) A-I      intronic chr10:112636041(+) A-I      intronic chr10:112639276(+) A-I      intronic chr10:112650998(+) A-I      intronic chr10:112639286(+) A-I      intronic chr10:112635876(+) A-I      intronic chr10:112635992(+) A-I      intronic chr10:112635991(+) A-I      intronic chr10:112635900(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	PDCD4	chr10:112639276(+) A-G intron -    22484847 chr10:112639286(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	PDCD4	chr10:112631658-112631659(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//22575960//22608085 chr10:112631664-112631665(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//22575960//22608085 chr10:112631689-112631690(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//22575960//22608085 chr10:112631711-112631712(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//22575960//22608085 chr10:112631745-112631746(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//22575960//22608085 chr10:112635819-112635820(+) m6A 5'UTR//CDS//exon//intron       24209618//24981863 chr10:112641043-112641044(+) m6A CDS//exon       22608085 chr10:112641143-112641144(+) m6A CDS//exon       24981863//22575960//22608085 chr10:112641155-112641156(+) m6A CDS//exon       24981863//22575960//22608085 chr10:112641279-112641280(+) m6A CDS//exon       24981863//22575960//22608085 chr10:112642797-112642798(+) m6A CDS//exon       24981863//27773535//22575960 chr10:112645028-112645029(+) m6A CDS//exon       22575960 chr10:112645067-112645068(+) m6A CDS//exon       22575960 chr10:112657830-112657831(+) m6A CDS//exon       26404942 chr10:112657854-112657855(+) m6A 3'UTR//exon       26404942 chr10:112658366-112658367(+) m6A 3'UTR//exon       27773535 chr10:112658388-112658389(+) m6A 3'UTR//exon       27773535 chr10:112658393-112658394(+) m6A 3'UTR//exon       27773535 chr10:112658417-112658418(+) m6A 3'UTR//exon       27773535 chr10:112658436-112658437(+) m6A 3'UTR//exon       27773535 chr10:112658449-112658450(+) m6A 3'UTR//exon       27773535 chr10:112658482-112658483(+) m6A 3'UTR       27773535 chr10:112658537-112658538(+) m6A 3'UTR       27773535 chr10:112658587-112658588(+) m6A 3'UTR       27773535 chr10:112658621-112658622(+) m6A 3'UTR       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	PDCD4	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)     - Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleus HCC cell line (HepG2)     - Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART13-3p
Interactor2: PDCD4

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer
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.