Basic Information:

  VIRBase ID:  

VHID00317034

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART6-3p:  MIMAT0003415          CYTH2:  NM_004228     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART6-3p	CYTH2
miRBase Accession/Entrez ID	MIMAT0003415	9266
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	ARNO//CTS18//CTS18.1//cytohesin-2//PSCD2//PSCD2L//SEC7L//Sec7p-L//Sec7p-like

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	CYTH2	chr19:48975052(+) A-I      intronic chr19:48975192(+) A-I      intronic chr19:48975125(+) A-I      intronic chr19:48975206(+) A-I      intronic chr19:48975101(+) A-I      intronic chr19:48984909(+) A-I      3'UTR chr19:48974643(+) A-I      intronic chr19:48974526(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	CYTH2	chr19:48975157(+) A-I intron -    21960545 chr19:48984760(+) G-T intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CYTH2	chr19:48972558-48972559(+) m6A 5'UTR       25456834//24981863 chr19:48972635-48972636(+) m6A 5'UTR//exon       25456834//24981863 chr19:48972728-48972729(+) m6A 5'UTR//exon       24981863 chr19:48972900-48972901(+) m6A 5'UTR//intron       24981863 chr19:48973219-48973220(+) m6A CDS//intron       - chr19:48973276-48973277(+) m6A CDS//intron       24284625//24981863 chr19:48973618-48973619(+) m6A CDS//exon       24284625//24209618//24981863 chr19:48973651-48973652(+) m6A CDS//exon       24284625//24209618//24981863 chr19:48973863-48973864(+) m6A CDS//exon//intron       24284625//24209618//24981863 chr19:48973876-48973877(+) m6A CDS//exon//intron       24284625//24209618//24981863 chr19:48973902-48973903(+) m1A CDS//exon//intron       26863196 chr19:48973915-48973916(+) m6A CDS//exon//intron       24209618//24981863 chr19:48975607-48975608(+) m6A CDS//exon       24209618//24981863 chr19:48975618-48975619(+) m6A CDS//exon       24209618//24981863 chr19:48975666-48975667(+) m6A CDS//exon       24209618//24981863 chr19:48975671-48975672(+) m6A CDS//exon       24209618//24981863 chr19:48975684-48975685(+) m6A CDS//exon       24209618//24981863 chr19:48975749-48975750(+) m6A exon//intron       - chr19:48977507-48977508(+) m6A CDS//exon       24284625 chr19:48977540-48977541(+) m6A CDS//exon       24284625 chr19:48977564-48977565(+) m6A CDS//exon       24284625 chr19:48978179-48978180(+) m6A CDS//exon       24284625 chr19:48978246-48978247(+) m6A CDS//exon//intron       24284625 chr19:48978269-48978270(+) m6A CDS//exon//intron       24284625//24981863 chr19:48978299-48978300(+) m6A CDS//exon//intron       24284625//24981863 chr19:48979458-48979459(+) m6A 5'UTR//exon//intron       - chr19:48979495-48979496(+) m6A 5'UTR//exon//intron       - chr19:48981370-48981371(+) m6A CDS//exon//intron       - chr19:48981599-48981600(+) m6A 3'UTR//CDS//exon//intron       - chr19:48981705-48981706(+) m6A 3'UTR//CDS//exon//intron       - chr19:48981751-48981752(+) m6A 3'UTR//CDS//exon//intron       22575960 chr19:48981782-48981783(+) m6A 3'UTR//CDS//exon//intron       22575960 chr19:48982396-48982397(+) m6A 3'UTR//CDS//exon//intron       - chr19:48982522-48982523(+) m6A 3'UTR//exon//intron       24284625//24981863//22608085 chr19:48983043-48983044(+) m6A 3'UTR//intron       25456834//24981863 chr19:48983062-48983063(+) m6A 3'UTR//intron       25456834//24981863 chr19:48983187-48983188(+) m6A 3'UTR//exon//intron       25456834//24981863 chr19:48983248-48983249(+) m6A 3'UTR//exon//intron       24209618//24981863 chr19:48983276-48983277(+) m6A 3'UTR//exon//intron       24284625//24209618 chr19:48983773-48983774(+) m6A 3'UTR//intron       - chr19:48983821-48983822(+) m6A 3'UTR//intron       - chr19:48983856-48983857(+) m6A 3'UTR//intron       - chr19:48984066-48984067(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//22608085 chr19:48984116-48984117(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//22608085 chr19:48984480-48984481(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085 chr19:48984602-48984603(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085 chr19:48984670-48984671(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085 chr19:48984708-48984709(+) m6A 3'UTR//intron       24284625//25456834//24981863//22608085 chr19:48984814-48984815(+) m6A 3'UTR//intron       24981863 chr19:48985410-48985411(+) m6A 3'UTR       24284625//24209618//24981863//22608085 chr19:48985460-48985461(+) m6A 3'UTR       24284625//24981863//27773535//22608085 chr19:48985499-48985500(+) m6A 3'UTR       24284625//24981863//27773535//22608085 chr19:48985542-48985543(+) m6A 3'UTR       24284625//24981863//22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CYTH2	Chromatin K562 cells     - Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Membrane K562 cells     - Nucleoplasm K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus HeLa-S3 cells|K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART6-3p
Interactor2: CYTH2

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//PARalyzer//PITA
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	None
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.