Detail Information

Basic Information:


  VIRBase ID:  

HHID00065294

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-196a-3p:           SYVN1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-196a-3p SYVN1
miRBase
Accession/Entrez ID		 MIMAT0004562 84447
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - DER3//HRD1

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-196a-3p
rs11614913 chr12:53991815    C/T
rs1368718408 chr12:53991807    A/G
rs746757166 chr12:53991820    G/A
rs748322294 chr12:53991799    C/A
rs748322294 chr12:53991799    C/T
rs1180405062 chr12:53991805    C/A
rs1416846667 chr12:53991804    A/G
rs530949885 chr12:53991800    G/A

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SYVN1
chr11:64901459(-) A-I      intronic
chr11:64896391(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SYVN1
chr11:64889370-64889371(-) m6A intron       24284625//25456834//24981863//27773535//27371828//22575960
chr11:64889439-64889440(-) m6A intron       27371828
chr11:64889487-64889488(-) m6A intron       27371828
chr11:64889572-64889573(-) m6A exon       24284625//25456834//24981863//27773535//27371828//27773536//22575960//22608085
chr11:64889674-64889675(-) m6A exon       24284625//25456834//24981863//27773535//27371828//27773536//22575960//22608085
chr11:64889703-64889704(-) m6A exon       25456834//24981863//27773535//27371828//27773536
chr11:64889833-64889834(-) m6A exon       24284625//25456834//24981863//22608085
chr11:64889867-64889868(-) m6A exon       24284625//25456834//24981863//22608085
chr11:64894763-64894764(-) m6A 3'UTR//exon//intron       24284625//25456834//24981863//22608085
chr11:64895181-64895182(-) m6A 3'UTR//exon//intron       24284625
chr11:64895235-64895236(-) m6A 3'UTR//exon//intron       24284625//24209618//27773535//22575960
chr11:64895397-64895398(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr11:64895422-64895423(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr11:64895451-64895452(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr11:64895480-64895481(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr11:64895800-64895801(-) m6A 3'UTR//exon//intron       24284625//27773535
chr11:64896145-64896146(-) m6A CDS//exon//intron       24284625//27773535
chr11:64897407-64897408(-) m6A exon//intron       24284625//27773535
chr11:64898263-64898264(-) m6A CDS//exon       27773535
chr11:64898419-64898420(-) m6A CDS//exon       27773535
chr11:64898468-64898469(-) m6A 3'UTR//CDS//exon       27773535
chr11:64898608-64898609(-) m6A 3'UTR//CDS//exon       27773535
chr11:64899794-64899795(-) m6A CDS//exon//intron       27773535
chr11:64899878-64899879(-) m6A exon//intron       27773535
chr11:64900396-64900397(-) m6A CDS//exon       27773535
chr11:64900405-64900406(-) m6A CDS//exon       27773535
chr11:64900508-64900509(-) m6A CDS//exon       27773535
chr11:64901799-64901800(-) m6A 5'UTR//intron       24981863
chr11:64901876-64901877(-) m6A 5'UTR//intron       24981863
chr11:64901882-64901883(-) m6A 5'UTR//intron       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-196a-3p
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Fibroblasts|Mesenchymal stem cells     -
SYVN1
Chromatin K562 cells     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-196a-3p
Interactor2: SYVN1

Evidence Support:


Weak-Evidence PAR-CLIP
Support Database ViRBase

References:


PMID 22291592 Target region CDS
Source ViRBase Interactor1 expression None
Tissue or cell line EF3D-AGO2 cells//LCL35 cells//LCL-BAC cells//LCL-BAC-D1 cells//LCL-BAC-D3 cells Interactor2 expression None
Description We identified 7, 827 miRNA-interaction sites in 3, 492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.

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