Basic Information:

  VIRBase ID:  

VHID00385334

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART20-5p:  MIMAT0003719          FAM189B:  NM_006589     

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Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART20-5p	FAM189B
miRBase Accession/Entrez ID	MIMAT0003719	10712
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	C1orf2//COTE1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	FAM189B	chr1:155219512(-) A-I      intronic chr1:155219548(-) A-I      intronic chr1:155219503(-) A-I      intronic chr1:155219506(-) A-I      intronic chr1:155218602(-) A-I      intronic chr1:155219085(-) A-I      intronic chr1:155219155(-) A-I      intronic chr1:155219042(-) A-I      intronic chr1:155219049(-) A-I      intronic chr1:155219137(-) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	FAM189B	chr1:155217312-155217313(-) m6A 3'UTR//CDS//exon       24284625//24981863//22575960 chr1:155217355-155217356(-) m6A 3'UTR//exon//intron       24284625//24981863//22575960 chr1:155217394-155217395(-) m6A 3'UTR//exon//intron       24284625//24981863//22575960 chr1:155217471-155217472(-) m6A 3'UTR//exon//intron       24284625//24981863 chr1:155217517-155217518(-) m6A 3'UTR//exon//intron       24284625 chr1:155217549-155217550(-) m6A 3'UTR//exon//intron       24284625 chr1:155217583-155217584(-) m6A 3'UTR//CDS//exon//intron       24284625 chr1:155217849-155217850(-) m6A 3'UTR//CDS//exon//intron       24284625 chr1:155217863-155217864(-) m6A 3'UTR//CDS//exon//intron       24284625 chr1:155217874-155217875(-) m6A 3'UTR//CDS//exon//intron       24284625 chr1:155217943-155217944(-) m6A 3'UTR//CDS//exon//intron       24284625 chr1:155220277-155220278(-) m6A CDS//exon//intron       24284625//27773536 chr1:155220440-155220441(-) m6A CDS//exon//intron       24284625//25456834//24981863//27371828//22575960 chr1:155220497-155220498(-) m6A CDS//exon//intron       24284625//25456834//24981863//27371828//22575960 chr1:155220539-155220540(-) m6A CDS//exon//intron       24284625//25456834//24981863 chr1:155220602-155220603(-) m6A CDS//exon//intron       24284625 chr1:155221536-155221537(-) m6A CDS//exon//intron       24284625 chr1:155221607-155221608(-) m6A CDS//exon//intron       24284625 chr1:155221660-155221661(-) m6A CDS//exon//intron       24284625 chr1:155221724-155221725(-) m6A exon//intron       24284625 chr1:155224795-155224796(-) m6A 5'UTR//exon       27773536 chr1:155224984-155224985(-) m6A 5'UTR//exon       24284625//27773536 chr1:155225062-155225063(-) m6A 5'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536 chr1:155225178-155225179(-) m6A 5'UTR//exon       24284625//25456834//24981863//27371828//27773536 chr1:155225194-155225195(-) m6A 5'UTR//exon       24284625//25456834//24981863//27371828//27773536

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	FAM189B	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)     - Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleoplasm K562 cells     - Nucleus K562 cells     - Ribosome-free cytosol Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART20-5p
Interactor2: FAM189B

Evidence Support:

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

References:

PMID	22100165	Target region	3'UTR
Source	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.