Detail Information

Basic Information:


  VIRBase ID:  

VHID00347643

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6743

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART13-3p:           PPM1A:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART13-3p PPM1A
miRBase
Accession/Entrez ID		 MIMAT0003424 5494
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - PP2C-ALPHA//PP2CA//PP2Calpha

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR PPM1A
chr14:60742334(+) A-I      intronic
chr14:60722951(+) A-I      intronic
chr14:60722096(+) A-I      intronic
chr14:60740661(+) A-I      intronic
chr14:60722007(+) A-I      intronic
chr14:60740585(+) A-I      intronic
chr14:60721970(+) A-I      intronic
chr14:60721954(+) A-I      intronic
chr14:60721945(+) A-I      intronic
chr14:60739191(+) A-I      intronic
chr14:60721940(+) A-I      intronic
chr14:60723101(+) A-I      intronic
chr14:60723121(+) A-I      intronic
chr14:60742305(+) A-I      intronic
chr14:60722921(+) A-I      intronic
chr14:60729794(+) A-I      intronic
chr14:60721913(+) A-I      intronic
chr14:60736292(+) A-I      intronic
chr14:60729220(+) A-I      intronic
chr14:60729829(+) A-I      intronic
chr14:60729815(+) A-I      intronic
chr14:60729733(+) A-I      intronic
chr14:60729698(+) A-I      intronic
chr14:60729690(+) A-I      intronic
chr14:60729384(+) A-I      intronic
chr14:60729304(+) A-I      intronic
chr14:60729263(+) A-I      intronic
chr14:60742222(+) A-I      intronic
chr14:60729130(+) A-I      intronic
chr14:60723111(+) A-I      intronic
chr14:60742241(+) A-I      intronic
chr14:60723057(+) A-I      intronic
chr14:60723054(+) A-I      intronic
chr14:60722983(+) A-I      intronic
chr14:60722978(+) A-I      intronic
chr14:60722906(+) A-I      intronic
chr14:60722163(+) A-I      intronic
chr14:60722100(+) A-I      intronic
chr14:60739169(+) A-I      intronic
chr14:60722922(+) A-I      intronic
chr14:60742452(+) A-I      intronic
chr14:60740658(+) A-I      intronic
chr14:60746779(+) A-I      intronic
chr14:60722975(+) A-I      intronic
chr14:60729372(+) A-I      intronic
chr14:60723072(+) A-I      intronic
chr14:60739170(+) A-I      intronic
chr14:60742266(+) A-I      intronic
chr14:60739280(+) A-I      intronic
chr14:60740570(+) A-I      intronic
chr14:60740587(+) A-I      intronic
chr14:60729734(+) A-I      intronic
chr14:60723031(+) A-I      intronic
chr14:60742451(+) A-I      intronic
chr14:60722976(+) A-I      intronic
chr14:60729885(+) A-I      intronic
chr14:60722910(+) A-I      intronic
chr14:60722884(+) A-I      intronic
chr14:60722861(+) A-I      intronic
chr14:60729257(+) A-I      intronic
chr14:60723137(+) A-I      intronic
chr14:60729243(+) A-I      intronic
chr14:60722927(+) A-I      intronic
chr14:60742338(+) A-I      intronic
chr14:60740594(+) A-I      intronic
chr14:60742442(+) A-I      intronic
chr14:60729139(+) A-I      intronic
chr14:60722883(+) A-I      intronic
chr14:60723100(+) A-I      intronic
chr14:60722980(+) A-I      intronic
chr14:60729279(+) A-I      intronic
chr14:60729880(+) A-I      intronic
chr14:60722977(+) A-I      intronic
chr14:60723045(+) A-I      intronic
chr14:60742322(+) A-I      intronic
chr14:60723063(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED PPM1A
chr14:60723100(+) A-I intron -    22327324
chr14:60742222(+) A-I intron -    22327324
chr14:60722884(+) A-G intron -    22484847
chr14:60722910(+) A-G intron -    22484847
chr14:60723100(+) A-G intron -    22484847
chr14:60723121(+) A-G intron -    22484847
chr14:60729880(+) A-G intron -    22484847
chr14:60740658(+) A-G intron -    22484847
chr14:60742222(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase PPM1A
chr14:60712722-60712723(+) m6A CDS       24981863
chr14:60712760-60712761(+) m6A CDS       24981863
chr14:60716090-60716091(+) m6A 5'UTR//intron       24209618//24981863
chr14:60716097-60716098(+) m6A 5'UTR//intron       24209618//24981863
chr14:60716151-60716152(+) m6A 5'UTR//intron       24209618//24981863//27773536
chr14:60716370-60716371(+) m6A 5'UTR//intron       24284625//24209618//24981863
chr14:60717108-60717109(+) m6A 5'UTR//intron       24284625//24209618//24981863
chr14:60717130-60717131(+) m6A 5'UTR//intron       24284625//24209618//24981863
chr14:60743793-60743794(+) m6A 5'UTR//CDS//intron       24209618
chr14:60744054-60744055(+) m6A 5'UTR//intron       24209618//24981863
chr14:60744073-60744074(+) m6A 5'UTR//intron       24284625//24209618//24981863//22608085
chr14:60749416-60749417(+) m6A 3'UTR//5'UTR//CDS       24284625//24209618//24981863//22608085
chr14:60749437-60749438(+) m6A 3'UTR//CDS       24284625//24209618//24981863//22608085
chr14:60749567-60749568(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//22575960//22608085
chr14:60749727-60749728(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60749750-60749751(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60749777-60749778(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60749857-60749858(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60749881-60749882(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60749915-60749916(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:60752432-60752433(+) m6A 3'UTR//CDS       27773535
chr14:60752518-60752519(+) m6A 3'UTR//intron       24981863
chr14:60755258-60755259(+) m6A 3'UTR//intron       24209618
chr14:60755267-60755268(+) m6A 3'UTR//intron       24209618
chr14:60756592-60756593(+) m6A 3'UTR//CDS       24209618
chr14:60758144-60758145(+) m6A 3'UTR//CDS       24284625//24981863//22608085
chr14:60759201-60759202(+) m6A 3'UTR       24284625//24981863//22608085
chr14:60759266-60759267(+) m6A 3'UTR       24284625//24981863//27773535//22608085
chr14:60759334-60759335(+) m6A 3'UTR       24284625//24209618//24981863//27773535//22608085
chr14:60759362-60759363(+) m6A 3'UTR       24284625//24209618//24981863//27773535//22608085
chr14:60759395-60759396(+) m6A 3'UTR       24284625//24209618//24981863//26404942//22608085
chr14:60759417-60759418(+) m6A 3'UTR       24284625//24209618//24981863//26404942//22608085
chr14:60759441-60759442(+) m6A 3'UTR       24981863//22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate PPM1A
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART13-3p
Interactor2: PPM1A

Evidence Support:


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

References:


[1]PMID 22100165 Target region 3'UTR
Source ViRBase//VIRmiRNA//VmiReg 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.
[2]PMID 22473208 Target region 3'UTR
Source ViRBase//VIRmiRNA//VmiReg Interactor1 expression None
Tissue or cell line Jijoye cells Interactor2 expression None
Description Our HITS-CLIP data yield 1185 human 3'UTRs targeted by members of the miR-17~92 cluster in Jijoye cells. Comparison to the 1664 3'UTRs targeted by EBV miRNAs reveals 740 shared genes (44% of EBV targets and 62% of miR-17~92 targets; Figure 6B and Supplementary Table 7). Thus, EBV miRNAs co-target a majority of miR-17~92 regulated mRNAs, which are assigned to a variety of pathways, most notably regulating transcription, apoptosis, and the cell cycle (Figure 6C). Similarly, other abundant immunologically relevant miRNAs, 142-3p and miR-155, co-target with EBV miRNAs a large fraction of their Ago-bound 3'UTRs, representing ~60% of the targets for each of these host miRNAs (Supplementary Figure 5).

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