Detail Information

Basic Information:


  VIRBase ID:  

VHID00384161

  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:           IRF1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART20-5p IRF1
miRBase
Accession/Entrez ID		 MIMAT0003719 3659
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - IRF-1//MAR

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR IRF1
chr5:131818439(-) A-I      3'UTR
chr5:131818440(-) A-I      3'UTR
chr5:131818454(-) A-I      3'UTR
chr5:131818419(-) A-I      3'UTR
chr5:131818453(-) A-I      3'UTR

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase IRF1
chr5:131818658-131818659(-) m6A 3'UTR       24981863//27773535
chr5:131818664-131818665(-) m6A 3'UTR       24981863//27773535
chr5:131818681-131818682(-) m6A 3'UTR       24981863//27773535
chr5:131818705-131818706(-) m6A 3'UTR       24981863//27773535
chr5:131818715-131818716(-) m6A 3'UTR       27773535
chr5:131818835-131818836(-) m6A 3'UTR//exon       27773535
chr5:131819058-131819059(-) m6A 3'UTR//exon       27773535
chr5:131819174-131819175(-) m6A 3'UTR//exon       26404942//27773535
chr5:131819203-131819204(-) m6A 3'UTR//exon       26404942//27773535
chr5:131819296-131819297(-) m6A 3'UTR//exon       27773535
chr5:131819377-131819378(-) m6A 3'UTR//exon       27773535
chr5:131819383-131819384(-) m6A 3'UTR//exon       27773535
chr5:131819403-131819404(-) m6A 3'UTR//exon       27773535
chr5:131819564-131819565(-) m6A 3'UTR//exon       24284625//24981863//28052920//26404942//27773535//22575960//22608085
chr5:131819601-131819602(-) m6A 3'UTR//exon       24284625//24981863//26404942//27773535//22575960//22608085
chr5:131819700-131819701(-) m6A CDS//exon       24284625//27773535
chr5:131819721-131819722(-) m6A CDS//exon       24284625//27773535
chr5:131820094-131820095(-) m6A 3'UTR//CDS//exon       27773535
chr5:131820126-131820127(-) m6A 3'UTR//CDS//exon       27773535
chr5:131821368-131821369(-) m6A CDS//exon//intron       27773535
chr5:131821464-131821465(-) m6A exon//intron       27773535
chr5:131821470-131821471(-) m6A exon//intron       27773535
chr5:131821504-131821505(-) m6A exon//intron       27773535
chr5:131821512-131821513(-) m6A exon//intron       27773535
chr5:131822221-131822222(-) m6A exon//intron       27371828
chr5:131822277-131822278(-) m6A CDS//exon       27371828
chr5:131822339-131822340(-) m6A CDS//exon       27371828
chr5:131822634-131822635(-) m6A exon//intron       27773535//27371828
chr5:131822656-131822657(-) m6A 3'UTR//CDS//exon       27773535//27371828
chr5:131822710-131822711(-) m6A 3'UTR//CDS//exon       27773535//27371828
chr5:131822722-131822723(-) m6A 3'UTR//CDS//exon       27773535//27371828
chr5:131822752-131822753(-) m6A 3'UTR//CDS//exon       27773535//27371828
chr5:131823664-131823665(-) m6A CDS//exon//intron       27371828
chr5:131823920-131823921(-) m6A exon//intron       -
chr5:131824018-131824019(-) m6A exon//intron       -
chr5:131824036-131824037(-) m6A exon//intron       -
chr5:131824135-131824136(-) m6A exon//intron       -
chr5:131826274-131826275(-) m6A 5'UTR//exon       27371828
chr5:131826355-131826356(-) m6A 5'UTR//exon       24981863//27371828
chr5:131826413-131826414(-) m6A 5'UTR//exon       24981863//27371828

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate IRF1
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART20-5p
Interactor2: IRF1

Evidence Support:


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

References:


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

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