Detail Information

Basic Information:


  VIRBase ID:  

VHID00370682

  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:           TMTC3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART17-5p TMTC3
miRBase
Accession/Entrez ID		 MIMAT0003715 160418
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - LIS8//SMILE

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TMTC3
chr12:88557908(+) A-I      intronic
chr12:88557899(+) A-I      intronic
chr12:88556882(+) A-I      intronic
chr12:88556709(+) A-I      intronic
chr12:88556895(+) A-I      intronic
chr12:88557711(+) A-I      intronic
chr12:88556711(+) A-I      intronic
chr12:88557812(+) A-I      intronic
chr12:88557916(+) A-I      intronic
chr12:88556779(+) A-I      intronic
chr12:88556757(+) A-I      intronic
chr12:88556749(+) A-I      intronic
chr12:88557734(+) A-I      intronic
chr12:88585561(+) A-I      intronic
chr12:88557814(+) A-I      intronic
chr12:88552842(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED TMTC3
chr12:88557814(+) A-G intron -    22484847
chr12:88556749(+) A-G intron -    22484847
chr12:88556757(+) A-G intron -    22484847
chr12:88556779(+) A-G intron -    22484847
chr12:88557734(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TMTC3
chr12:88536086-88536087(+) m6A 5'UTR       25456834//24981863
chr12:88536116-88536117(+) m6A 5'UTR       25456834//24981863
chr12:88536155-88536156(+) m6A 5'UTR       25456834//24981863
chr12:88536177-88536178(+) m6A 5'UTR//intron       25456834//24981863
chr12:88586407-88586408(+) m6A CDS       24981863//26404942
chr12:88586451-88586452(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88586500-88586501(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88586509-88586510(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88586529-88586530(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88586548-88586549(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88586566-88586567(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88588624-88588625(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88588630-88588631(+) m6A CDS       24284625//24981863//26404942//22608085
chr12:88588731-88588732(+) m6A CDS       24284625//24209618//24981863//26404942//22575960//22608085
chr12:88588823-88588824(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr12:88588911-88588912(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr12:88589002-88589003(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr12:88589037-88589038(+) m6A CDS       24284625//24981863//27773535//22575960//22608085
chr12:88589069-88589070(+) m6A CDS       24284625//24981863//27773535//22575960//22608085
chr12:88589242-88589243(+) m6A CDS       24284625//24981863//27773535//22575960//22608085
chr12:88589261-88589262(+) m6A CDS       24284625//24981863//27773535//22575960//22608085
chr12:88589296-88589297(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr12:88589324-88589325(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr12:88589336-88589337(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr12:88589346-88589347(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr12:88589389-88589390(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr12:88589459-88589460(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr12:88589577-88589578(+) m6A 3'UTR       24284625//24209618//24981863//26404942//22575960//22608085
chr12:88589765-88589766(+) m6A 3'UTR       22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate TMTC3
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleus Colon cancer cells     24393600
Nucleus K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART17-5p
Interactor2: TMTC3

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence cRep//miRanda//PARalyzer//PITA//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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