Detail Information

Basic Information:


  VIRBase ID:  

VHID00368207

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART17-5p:           NDRG1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART17-5p NDRG1
miRBase
Accession/Entrez ID		 MIMAT0003715 10397
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - CAP43//CMT4D//DRG-1//DRG1//GC4//HMSNL//NDR1//NMSL//PROXY1//RIT42//RTP//TARG1//TDD5

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR NDRG1
chr8:134291406(-) A-I      intronic
chr8:134291270(-) A-I      intronic
chr8:134291242(-) A-I      intronic
chr8:134289668(-) A-I      intronic
chr8:134289649(-) A-I      intronic
chr8:134289554(-) A-I      intronic
chr8:134289562(-) A-I      intronic
chr8:134289602(-) A-I      intronic
chr8:134289589(-) A-I      intronic
chr8:134289624(-) A-I      intronic
chr8:134289581(-) A-I      intronic
chr8:134289550(-) A-I      intronic
chr8:134289572(-) A-I      intronic
chr8:134292872(-) A-I      intronic
chr8:134292697(-) A-I      intronic
chr8:134291389(-) A-I      intronic
chr8:134291315(-) A-I      intronic
chr8:134291249(-) A-I      intronic
chr8:134291310(-) A-I      intronic
chr8:134291360(-) A-I      intronic
chr8:134291247(-) A-I      intronic
chr8:134291281(-) A-I      intronic
chr8:134291196(-) A-I      intronic
chr8:134291301(-) A-I      intronic
chr8:134291383(-) A-I      intronic
chr8:134291309(-) A-I      intronic
chr8:134291306(-) A-I      intronic
chr8:134291289(-) A-I      intronic
chr8:134292791(-) A-I      intronic
chr8:134291302(-) A-I      intronic
chr8:134291351(-) A-I      intronic
chr8:134289640(-) A-I      intronic
chr8:134291308(-) A-I      intronic
chr8:134293488(-) A-I      intronic
chr8:134291280(-) A-I      intronic
chr8:134291303(-) A-I      intronic
chr8:134291400(-) A-I      intronic
chr8:134291273(-) A-I      intronic
chr8:134291145(-) A-I      intronic
chr8:134289804(-) A-I      intronic
chr8:134291161(-) A-I      intronic
chr8:134291326(-) A-I      intronic
chr8:134276077(-) A-I      intronic
chr8:134291230(-) A-I      intronic
chr8:134291333(-) A-I      intronic
chr8:134291375(-) A-I      intronic
chr8:134291312(-) A-I      intronic
chr8:134293365(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED NDRG1
chr8:134291196(-) A-I intron -    22028664
chr8:134291247(-) A-I intron -    22028664
chr8:134291249(-) A-I intron -    22028664
chr8:134291280(-) A-I intron -    22028664
chr8:134291281(-) A-I intron -    22028664
chr8:134291289(-) A-I intron -    22028664
chr8:134291301(-) A-I intron -    22028664
chr8:134291302(-) A-I intron -    22028664
chr8:134291306(-) A-I intron -    22028664
chr8:134291308(-) A-I intron -    22028664
chr8:134291309(-) A-I intron -    22028664
chr8:134291310(-) A-I intron -    22028664
chr8:134291315(-) A-I intron -    22028664
chr8:134291333(-) A-I intron -    22028664
chr8:134291351(-) A-I intron -    22028664
chr8:134291360(-) A-I intron -    22028664
chr8:134291365(-) A-I intron -    22028664
chr8:134291375(-) A-I intron -    22028664
chr8:134291383(-) A-I intron -    22028664
chr8:134291400(-) A-I intron -    22028664
chr8:134289687(-) A-I intron -    21960545

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase NDRG1
chr8:134249439-134249440(-) m6A 3'UTR//exon       27773535
chr8:134249500-134249501(-) m6A 3'UTR//exon       27773535
chr8:134250606-134250607(-) m6A 3'UTR//exon//intron       24981863//26404942//27773535
chr8:134250615-134250616(-) m6A 3'UTR//exon//intron       24981863//26404942//27773535
chr8:134250675-134250676(-) m6A 3'UTR//exon//intron       24981863//26404942//27773535
chr8:134250820-134250821(-) m6A 3'UTR//exon//intron       24284625//24981863//26404942//27773535
chr8:134250830-134250831(-) m6A 3'UTR//exon//intron       24284625//24981863//26404942//27773535
chr8:134250837-134250838(-) m6A 3'UTR//exon//intron       24284625//24981863//26404942//27773535
chr8:134250923-134250924(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535//22575960
chr8:134250975-134250976(-) m6A 3'UTR//exon//intron       24284625//27773535//22575960
chr8:134251093-134251094(-) m6A 3'UTR//exon//intron       24284625//25456834//24981863//27371828//27773536//22575960
chr8:134251157-134251158(-) m6A 3'UTR//CDS//exon//intron       24284625//25456834//24981863//27371828//27773536//22575960
chr8:134251187-134251188(-) m6A 3'UTR//CDS//exon//intron       24284625//24981863//27371828//27773536//22575960
chr8:134258883-134258884(-) m6A 3'UTR//CDS//exon//intron       22575960
chr8:134260142-134260143(-) m6A 3'UTR//CDS//exon//intron       22575960
chr8:134260976-134260977(-) m6A 3'UTR//CDS//exon//intron       22575960
chr8:134262721-134262722(-) m6A 3'UTR//CDS//exon//intron       27773535
chr8:134266809-134266810(-) m6A 3'UTR//CDS//exon//intron       27773535
chr8:134266825-134266826(-) m6A 3'UTR//CDS//exon//intron       27773535
chr8:134274373-134274374(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134274404-134274405(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134274409-134274410(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134274469-134274470(-) m6A exon//intron       27773535
chr8:134274496-134274497(-) m6A exon//intron       27773535
chr8:134276791-134276792(-) m6A CDS//exon//intron       27773535
chr8:134276830-134276831(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134276843-134276844(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134276879-134276880(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134276887-134276888(-) m6A 5'UTR//CDS//exon//intron       27773535
chr8:134296528-134296529(-) m6A 5'UTR//CDS//exon//intron       24284625//27371828
chr8:134296555-134296556(-) m6A 5'UTR//CDS//exon//intron       24284625//27371828
chr8:134309297-134309298(-) m6A 5'UTR//intron       27773536
chr8:134309496-134309497(-) m6A 5'UTR//intron       24981863//27371828//27773536
chr8:134309573-134309574(-) m6A 5'UTR//intron       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate NDRG1
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Endoplasmic reticulum Human fibrosarcoma cells (HT1080)     25753659
Exosome Blood     -
Nucleolus K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART17-5p
Interactor2: NDRG1

Evidence Support:


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

References:


PMID 22100165 Target region 3'UTR
Source RepTar//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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