Detail Information

Basic Information:


  VIRBase ID:  

HHID00059726

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-519d-3p:           YTHDF3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-519d-3p YTHDF3
miRBase
Accession/Entrez ID		 MIMAT0002853 253943
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - -

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-519d-3p
rs1031566931 chr19:53713420    T/A
rs116796400 chr19:53713416    A/G
rs1177367352 chr19:53713409    T/A
rs1362826944 chr19:53713419    G/T
rs1443130720 chr19:53713413    T/A
rs748935087 chr19:53713417    G/T
rs752635598 chr19:53713417    G/GTGTTACCCAAAGTGTTACCCAAACGTAACCCAA
rs754470034 chr19:53713415    T/TACCAA
rs754470034 chr19:53713415    T/TA
rs754629979 chr19:53713421    G/T
rs755601254 chr19:53713414    T/A
rs752048127 chr19:53713406    G/T
rs764695340 chr19:53713405    T/G

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR YTHDF3
chr8:64110954(+) A-I      intronic
chr8:64110935(+) A-I      intronic
chr8:64115149(+) A-I      intronic
chr8:64110925(+) A-I      intronic
chr8:64108919(+) A-I      intronic
chr8:64108627(+) A-I      intronic
chr8:64108489(+) A-I      intronic
chr8:64108459(+) A-I      intronic
chr8:64106922(+) A-I      intronic
chr8:64106912(+) A-I      intronic
chr8:64106855(+) A-I      intronic
chr8:64106832(+) A-I      intronic
chr8:64097541(+) A-I      intronic
chr8:64088968(+) A-I      intronic
chr8:64106923(+) A-I      intronic
chr8:64090446(+) A-I      intronic
chr8:64115710(+) A-I      intronic
chr8:64115703(+) A-I      intronic
chr8:64115694(+) A-I      intronic
chr8:64115671(+) A-I      intronic
chr8:64115661(+) A-I      intronic
chr8:64115713(+) A-I      intronic
chr8:64115733(+) A-I      intronic
chr8:64115526(+) A-I      intronic
chr8:64115100(+) A-I      intronic
chr8:64115081(+) A-I      intronic
chr8:64111034(+) A-I      intronic
chr8:64110964(+) A-I      intronic
chr8:64097600(+) A-I      intronic
chr8:64108955(+) A-I      intronic
chr8:64118882(+) A-I      intronic
chr8:64097646(+) A-I      intronic
chr8:64097630(+) A-I      intronic
chr8:64097610(+) A-I      intronic
chr8:64115201(+) A-I      intronic
chr8:64108865(+) A-I      intronic
chr8:64097622(+) A-I      intronic
chr8:64115669(+) A-I      intronic
chr8:64095596(+) A-I      intronic
chr8:64097606(+) A-I      intronic
chr8:64115242(+) A-I      intronic
chr8:64109000(+) A-I      intronic
chr8:64115742(+) A-I      intronic
chr8:64095595(+) A-I      intronic
chr8:64097476(+) A-I      intronic
chr8:64115177(+) A-I      intronic
chr8:64101115(+) A-I      intronic
chr8:64109035(+) A-I      intronic
chr8:64097517(+) A-I      intronic
chr8:64108549(+) A-I      intronic
chr8:64115075(+) A-I      intronic
chr8:64110926(+) A-I      intronic
chr8:64108499(+) A-I      intronic
chr8:64108540(+) A-I      intronic
chr8:64109026(+) A-I      intronic
chr8:64094756(+) A-I      intronic
chr8:64115590(+) A-I      intronic
chr8:64108453(+) A-I      intronic
chr8:64115146(+) A-I      intronic
chr8:64097551(+) A-I      intronic
chr8:64097533(+) A-I      intronic
chr8:64094697(+) A-I      intronic
chr8:64105878(+) A-I      intronic
chr8:64108826(+) A-I      intronic
chr8:64108472(+) A-I      intronic
chr8:64108389(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED YTHDF3
chr8:64100140(+) A-I exon CDS    19478186
chr8:64090335(+) G-T intron -    22484847
chr8:64090336(+) A-G intron -    22484847
chr8:64095530(+) C-T intron -    22484847
chr8:64095649(+) A-G intron -    22484847
chr8:64097551(+) A-G intron -    22484847
chr8:64097610(+) A-G intron -    22484847
chr8:64108499(+) A-G intron -    22484847
chr8:64108865(+) A-G intron -    22484847
chr8:64110926(+) A-G intron -    22484847
chr8:64115075(+) A-G intron -    22484847
chr8:64115145(+) A-G intron -    22484847
chr8:64115146(+) A-G intron -    22484847
chr8:64115624(+) A-G intron -    22484847
chr8:64115669(+) A-G intron -    22484847
chr8:64115742(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase YTHDF3
chr8:64081182-64081183(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863
chr8:64081208-64081209(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863
chr8:64081339-64081340(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863
chr8:64098810-64098811(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//22575960//22608085
chr8:64098841-64098842(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64098859-64098860(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64098980-64098981(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64098997-64098998(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099075-64099076(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099147-64099148(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099187-64099188(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099270-64099271(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099309-64099310(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099321-64099322(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099327-64099328(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099381-64099382(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64099400-64099401(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64099463-64099464(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64099567-64099568(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099668-64099669(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099689-64099690(+) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr8:64099773-64099774(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64099791-64099792(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64099981-64099982(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64100019-64100020(+) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64100149-64100150(+) m6A 3'UTR//CDS//exon//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64100169-64100170(+) m6A 3'UTR//CDS//exon//intron       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64101583-64101584(+) m6A exon//intron       24284625//24209618//24981863//22575960//22608085
chr8:64101590-64101591(+) m6A exon//intron       24284625//24209618//24981863//22575960//22608085
chr8:64122253-64122254(+) m6A 3'UTR//CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64122308-64122309(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64122378-64122379(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64122450-64122451(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64122462-64122463(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64122552-64122553(+) m6A 3'UTR       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr8:64123456-64123457(+) Y 3'UTR//exon       25219674

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-519d-3p
Exosome Serum     18589210
Exosome Human mast cell line (HMC-1)     24009880
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Fibroblasts     -
YTHDF3
Chromatin K562 cells     -
Cytosol HeLa-S3 cells     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-519d-3p
Interactor2: YTHDF3

Evidence Support:


Weak-Evidence HITS-CLIP
Support Database ViRBase

References:


PMID 22473208 Target region None
Source ViRBase 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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