Basic Information:

  VIRBase ID:  

VHID00329680

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART9-3p:  MIMAT0003419          TXNDC5:  NM_022085     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART9-3p	TXNDC5
miRBase Accession/Entrez ID	MIMAT0003419	81567
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	ENDOPDI//ERP46//HCC-2//HCC2//PDIA15//STRF8//UNQ364

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	TXNDC5	chr6:7882611-7882612(-) m6A 3'UTR//exon       24981863//26404942 chr6:7882658-7882659(-) m6A 3'UTR//exon       24981863//26404942 chr6:7882867-7882868(-) m6A 3'UTR//exon       26404942//22575960 chr6:7883049-7883050(-) m6A 3'UTR//exon       24284625//24981863//26404942//22575960//22608085 chr6:7883083-7883084(-) m6A 3'UTR//exon       24284625//24981863//26404942//22575960//22608085 chr6:7883149-7883150(-) m6A 3'UTR//exon       24284625//24981863 chr6:7883267-7883268(-) m6A 3'UTR//exon       24284625 chr6:7883373-7883374(-) m6A 3'UTR//exon       24284625//24981863//26404942//22575960 chr6:7883382-7883383(-) m6A CDS//exon       24284625//24981863//26404942//22575960 chr6:7883428-7883429(-) m6A CDS//exon       24284625//24981863//26404942//22575960 chr6:7884628-7884629(-) m6A CDS//exon       24284625//22575960 chr6:7884681-7884682(-) m6A CDS//exon       22575960 chr6:7884704-7884705(-) m6A CDS//exon       22575960 chr6:7888990-7888991(-) m6A CDS//exon       24981863//26404942//27773536//22575960 chr6:7889005-7889006(-) m6A CDS//exon       24981863//26404942//27773536//22575960 chr6:7889113-7889114(-) m6A exon//intron       24981863//26404942//27773536//22575960 chr6:7889125-7889126(-) m6A exon//intron       24981863//26404942//27773536//22575960 chr6:7889184-7889185(-) m6A exon//intron       27773536 chr6:7889437-7889438(-) m6A exon//intron       24284625 chr6:7889453-7889454(-) m6A exon//intron       24284625 chr6:7889459-7889460(-) m6A exon//intron       24284625 chr6:7889776-7889777(-) m6A CDS       27773536//22575960//22608085 chr6:7889790-7889791(-) m6A CDS       27773536//22575960 chr6:7891870-7891871(-) m6A CDS       22575960 chr6:7891880-7891881(-) m6A CDS       22575960 chr6:7895414-7895415(-) m6A CDS//exon       27773535//22575960 chr6:7898846-7898847(-) Gm intron       - chr6:7899828-7899829(-) m6A CDS//exon       27773535//22575960 chr6:7899842-7899843(-) m6A CDS//exon       27773535//22575960 chr6:7899852-7899853(-) m6A CDS//exon       27773535//22575960 chr6:7899860-7899861(-) m6A CDS//exon       27773535//22575960 chr6:7899957-7899958(-) m6A exon//intron       27773535 chr6:7904860-7904861(-) m6A CDS       26404942//27773535//22575960 chr6:7904898-7904899(-) Cm 5'UTR//CDS       - chr6:7904908-7904909(-) m6A 5'UTR//CDS       26404942//27773535//22575960 chr6:7904949-7904950(-) m6A 5'UTR//CDS       24284625//24209618//27773535//22575960 chr6:7910054-7910055(-) m6A 5'UTR//intron       24284625//24209618//22575960 chr6:7910102-7910103(-) m6A 5'UTR//intron       24284625//24209618//27773536 chr6:7910197-7910198(-) m6A 5'UTR//intron       24209618//27773536 chr6:7910833-7910834(-) m6A CDS       24284625//24209618//27371828//27773536//22575960 chr6:7910838-7910839(-) m6A CDS       24284625//24209618//27371828//27773536//22575960

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	TXNDC5	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|HeLa-S3 cells     - Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART9-3p
Interactor2: TXNDC5

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	PARalyzer
Support Database	ViRBase

References:

PMID	22100165	Target region	3'UTR
Source	ViRBase	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.