Detail Information

Basic Information:


  VIRBase ID:  

HHID00060864

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-580-3p:           SAMD9L:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-580-3p SAMD9L
miRBase
Accession/Entrez ID		 MIMAT0003245 219285
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - ATXPC//C7orf6//DRIF2//M7MLS1//UEF1

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-580-3p
rs1277701030 chr5:36147917    C/T
rs748870940 chr5:36147915    T/C
rs771814640 chr5:36147913    GATTCATC/G
rs779426932 chr5:36147912    T/C
rs867183932 chr5:36147914    A/T
rs894333782 chr5:36147913    G/A
rs1211215739 chr5:36147923    T/A
rs1258987446 chr5:36147924    C/T
rs1372042495 chr5:36147922    T/G
rs1485122288 chr5:36147921    A/C

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SAMD9L
chr7:92760666-92760667(-) m6A CDS       28052920
chr7:92760725-92760726(-) m6A CDS       28052920
chr7:92760830-92760831(-) m6A CDS       24981863//28052920//27371828
chr7:92760901-92760902(-) m6A CDS       24981863//28052920
chr7:92760946-92760947(-) m6A CDS       24981863
chr7:92761030-92761031(-) m6A CDS       24981863
chr7:92761060-92761061(-) m6A CDS       24981863
chr7:92761144-92761145(-) m6A CDS       24981863//28052920
chr7:92761172-92761173(-) m6A CDS       24981863//28052920
chr7:92761235-92761236(-) m6A CDS       24981863//28052920
chr7:92761258-92761259(-) m6A CDS       24981863//28052920
chr7:92761369-92761370(-) m6A CDS//intron       24981863//28052920
chr7:92761575-92761576(-) m6A CDS//intron       24981863//28052920
chr7:92761606-92761607(-) m6A CDS//intron       24981863//28052920
chr7:92761748-92761749(-) m6A CDS//intron       24981863//28052920//27371828
chr7:92761755-92761756(-) m6A CDS//intron       24981863//28052920//27371828
chr7:92761763-92761764(-) m6A CDS//intron       24981863//28052920//27371828
chr7:92761776-92761777(-) m6A CDS//intron       24981863//28052920//27371828
chr7:92761865-92761866(-) m6A CDS//intron       24209618//24981863//28052920//27371828//22575960
chr7:92761871-92761872(-) m6A CDS//intron       24209618//24981863//28052920//27371828//22575960
chr7:92761973-92761974(-) m6A CDS//intron       24209618//24981863//28052920//27371828//22575960
chr7:92761991-92761992(-) m6A CDS//intron       24209618//24981863//28052920//27371828//22575960
chr7:92762014-92762015(-) m6A CDS//intron       24209618//24981863//28052920//27371828//22575960
chr7:92762087-92762088(-) m6A CDS//intron       24981863//28052920//22575960
chr7:92762133-92762134(-) m6A CDS//intron       24981863//28052920//22575960
chr7:92762158-92762159(-) m6A CDS//intron       24981863//28052920//22575960
chr7:92762175-92762176(-) m6A CDS//intron       24981863//28052920//22575960
chr7:92762198-92762199(-) m6A CDS//intron       24981863//28052920
chr7:92762287-92762288(-) m6A CDS//intron       24981863//28052920
chr7:92762364-92762365(-) m6A CDS//intron       24981863
chr7:92762388-92762389(-) m6A CDS//intron       24981863
chr7:92762399-92762400(-) m6A CDS//intron       24981863
chr7:92762416-92762417(-) m6A CDS//intron       24981863
chr7:92762551-92762552(-) m6A CDS//intron       24981863//28052920
chr7:92762589-92762590(-) m6A CDS//intron       24981863//28052920
chr7:92762630-92762631(-) m6A CDS//intron       24981863//28052920
chr7:92762639-92762640(-) m6A CDS//intron       24981863//28052920
chr7:92762668-92762669(-) m6A CDS//intron       24981863//28052920
chr7:92762689-92762690(-) m6A CDS//intron       24981863//28052920
chr7:92762726-92762727(-) m6A CDS//intron       24981863//28052920
chr7:92762771-92762772(-) m6A CDS//intron       28052920
chr7:92762790-92762791(-) m6A CDS//intron       -
chr7:92762863-92762864(-) m6A CDS//intron       -
chr7:92762973-92762974(-) m6A CDS//intron       28052920
chr7:92762978-92762979(-) m6A CDS//intron       28052920
chr7:92763002-92763003(-) m6A CDS//intron       24981863//28052920
chr7:92763014-92763015(-) m6A CDS//intron       24981863//28052920
chr7:92763094-92763095(-) m6A CDS//intron       24981863//28052920
chr7:92763146-92763147(-) m6A CDS//intron       24981863
chr7:92763173-92763174(-) m6A CDS//intron       24981863
chr7:92763194-92763195(-) m6A CDS//intron       24981863//28052920
chr7:92763229-92763230(-) m6A CDS//intron       24981863//28052920
chr7:92763269-92763270(-) m6A CDS//intron       24981863//28052920
chr7:92763285-92763286(-) m6A CDS//intron       24981863//28052920
chr7:92763415-92763416(-) m6A CDS//intron       24981863
chr7:92763431-92763432(-) m6A CDS//intron       24981863
chr7:92763439-92763440(-) m6A CDS//intron       24981863
chr7:92763536-92763537(-) m6A CDS//intron       24981863
chr7:92764004-92764005(-) m6A CDS//intron       24981863
chr7:92764064-92764065(-) m6A CDS//intron       24981863//28052920
chr7:92764070-92764071(-) m6A CDS//intron       24981863//28052920
chr7:92764084-92764085(-) m6A CDS//intron       24981863//28052920
chr7:92764099-92764100(-) m6A CDS//intron       24981863//28052920
chr7:92764556-92764557(-) m6A CDS//intron       24981863
chr7:92764649-92764650(-) m6A CDS//intron       24981863//28052920
chr7:92764665-92764666(-) m6A CDS//intron       24981863//28052920
chr7:92764673-92764674(-) m6A CDS//intron       24981863//28052920
chr7:92764725-92764726(-) m6A CDS//intron       24981863//28052920
chr7:92764747-92764748(-) m6A CDS//intron       24981863//28052920
chr7:92764807-92764808(-) m6A CDS//intron       24981863//28052920
chr7:92764813-92764814(-) m6A CDS//intron       24981863//28052920
chr7:92764837-92764838(-) m6A CDS       24981863//28052920
chr7:92764894-92764895(-) m6A CDS       24981863//28052920
chr7:92764969-92764970(-) m6A CDS       24981863//28052920
chr7:92764987-92764988(-) m6A CDS       24981863//28052920//22575960
chr7:92764992-92764993(-) m6A CDS       24981863//28052920//22575960
chr7:92765002-92765003(-) m6A CDS       24981863//28052920//22575960
chr7:92765020-92765021(-) m6A CDS       24981863//28052920//27773535//22575960
chr7:92765123-92765124(-) m6A CDS       24209618//24981863//28052920//22575960
chr7:92765207-92765208(-) m6A CDS       24981863//28052920
chr7:92765241-92765242(-) m6A CDS       24981863//28052920
chr7:92765246-92765247(-) m6A CDS       24981863//28052920
chr7:92765275-92765276(-) m6A CDS       24981863//28052920
chr7:92775294-92775295(-) m6A 5'UTR//exon//intron       -
chr7:92777574-92777575(-) m6A 5'UTR//exon       24981863
chr7:92777652-92777653(-) m6A 5'UTR//exon       24981863
chr7:92777659-92777660(-) m6A 5'UTR//exon       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-580-3p
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Cell lines(GBM46|GBM8|HaCaT|K562|MCF-10A|MCF-7|MGG75)|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocytes     -
SAMD9L
Cytosol HeLa-S3 cells     -
Exosome Blood     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-580-3p
Interactor2: SAMD9L

Evidence Support:


Weak-Evidence PAR-CLIP
Support Database ViRBase

References:


PMID 22291592 Target region 3'UTR
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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