Detail Information

Basic Information:


  VIRBase ID:  

HHID00059694

  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:           LYSMD3:      

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Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-519d-3p LYSMD3
miRBase
Accession/Entrez ID		 MIMAT0002853 116068
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 LYSMD3
chr5:89820968(-) A-I      NonSyn:Lys->Glu
chr5:89820969(-) A-I      Syn:Gly->Gly
chr5:89820966(-) A-I      Syn:Lys->Lys
chr5:89820681(-) A-I      intronic
chr5:89820682(-) A-I      intronic
chr5:89820477(-) A-I      intronic
chr5:89816480(-) A-I      intronic
chr5:89816624(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase LYSMD3
chr5:89814162-89814163(-) m6A 3'UTR       27773535
chr5:89814239-89814240(-) m6A 3'UTR       27773535
chr5:89814640-89814641(-) m6A 3'UTR//CDS       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22608085
chr5:89814683-89814684(-) m6A 3'UTR//CDS       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22608085
chr5:89814792-89814793(-) m6A 3'UTR//CDS       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr5:89814898-89814899(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr5:89814918-89814919(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr5:89814936-89814937(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr5:89814951-89814952(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr5:89814965-89814966(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815014-89815015(-) m6A 3'UTR//CDS//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815029-89815030(-) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815049-89815050(-) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815056-89815057(-) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815062-89815063(-) m6A 3'UTR//CDS//intron       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085
chr5:89815136-89815137(-) m6A CDS//intron       24284625//24209618//24981863//27773535//27371828//22608085
chr5:89815175-89815176(-) m6A CDS//intron       24284625//24981863//27773535//27371828//22608085
chr5:89815198-89815199(-) m6A CDS//intron       24284625//24981863//27773535//22608085
chr5:89815257-89815258(-) m6A 3'UTR//CDS//intron       24284625//27773535//22608085
chr5:89816208-89816209(-) m6A 3'UTR//intron       27773535//22608085
chr5:89816233-89816234(-) m6A 3'UTR//intron       27773535//22608085
chr5:89820932-89820933(-) m6A CDS       24284625//24981863//27773535//22608085
chr5:89820983-89820984(-) m6A CDS       24981863//27773535//27371828//22608085
chr5:89821020-89821021(-) m6A CDS       24981863//27773535//27371828//22608085
chr5:89822761-89822762(-) m6A 5'UTR//intron       27773535//27371828
chr5:89822784-89822785(-) m6A 5'UTR//intron       27773535//27371828
chr5:89825267-89825268(-) m6A 5'UTR       24981863//27371828
chr5:89825310-89825311(-) m6A 5'UTR       24981863//27371828
chr5:89825326-89825327(-) m6A 5'UTR       24981863//27371828
chr5:89825337-89825338(-) m6A 5'UTR       24981863//27371828

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     -
LYSMD3
Chromatin K562 cells     -
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-519d-3p
Interactor2: LYSMD3

Evidence Support:


Weak-Evidence HITS-CLIP
Support Database ViRBase

References:


PMID 22473208 Target region 3'UTR
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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