Basic Information:

  VIRBase ID:  

HHID00059412

  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:  MIMAT0002853          GBP3:  NR_135007     

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Interactor Information:

	Interactor1	Interactor2
Symbol	hsa-miR-519d-3p	GBP3
miRBase Accession/Entrez ID	MIMAT0002853	2635
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	GBP3	chr1:89481375(-) A-I      intronic chr1:89482530(-) A-I      intronic chr1:89483645(-) A-I      intronic chr1:89483680(-) A-I      intronic chr1:89485109(-) A-I      intronic chr1:89485144(-) A-I      intronic chr1:89485153(-) A-I      intronic chr1:89485148(-) A-I      intronic chr1:89485915(-) A-I      intronic chr1:89485914(-) A-I      intronic chr1:89485256(-) A-I      intronic chr1:89485189(-) A-I      intronic chr1:89485165(-) A-I      intronic chr1:89482002(-) A-I      intronic chr1:89482078(-) A-I      intronic chr1:89482133(-) A-I      intronic chr1:89482513(-) A-I      intronic chr1:89482522(-) A-I      intronic chr1:89482531(-) A-I      intronic chr1:89482336(-) A-I      intronic chr1:89483559(-) A-I      intronic chr1:89483748(-) A-I      intronic chr1:89483527(-) A-I      intronic chr1:89483577(-) A-I      intronic chr1:89483593(-) A-I      intronic chr1:89485147(-) A-I      intronic chr1:89482363(-) A-I      intronic chr1:89485068(-) A-I      intronic chr1:89483558(-) A-I      intronic chr1:89482446(-) A-I      intronic chr1:89485136(-) A-I      intronic chr1:89483758(-) A-I      intronic chr1:89485039(-) A-I      intronic chr1:89483640(-) A-I      intronic chr1:89485751(-) A-I      intronic chr1:89482537(-) A-I      intronic chr1:89485040(-) A-I      intronic chr1:89482396(-) A-I      intronic chr1:89481956(-) A-I      intronic chr1:89485083(-) A-I      intronic chr1:89483654(-) A-I      intronic chr1:89483650(-) A-I      intronic chr1:89485074(-) A-I      intronic chr1:89483557(-) A-I      intronic chr1:89482021(-) A-I      intronic chr1:89485917(-) A-I      intronic chr1:89483710(-) A-I      intronic chr1:89485146(-) A-I      intronic chr1:89485757(-) A-I      intronic chr1:89483729(-) A-I      intronic chr1:89483667(-) A-I      intronic chr1:89482552(-) A-I      intronic chr1:89482015(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	GBP3	chr1:89482531(-) A-I intron -    15342557 chr1:89482552(-) A-I intron -    15342557 chr1:89483527(-) A-I intron -    15342557 chr1:89483557(-) A-I intron -    15342557 chr1:89483558(-) A-I intron -    15342557 chr1:89483559(-) A-I intron -    15342557 chr1:89483577(-) A-I intron -    15342557 chr1:89483593(-) A-I intron -    15342557 chr1:89483640(-) A-I intron -    15342557 chr1:89483650(-) A-I intron -    15342557 chr1:89483654(-) A-I intron -    15342557 chr1:89483667(-) A-I intron -    15342557 chr1:89483710(-) A-I intron -    15342557 chr1:89483729(-) A-I intron -    15342557 chr1:89483748(-) A-I intron -    15342557 chr1:89483758(-) A-I intron -    15342557 chr1:89482015(-) A-G intron -    22484847 chr1:89482537(-) A-G intron -    22484847 chr1:89483650(-) A-G intron -    22484847 chr1:89485039(-) A-G intron -    22484847 chr1:89485040(-) A-G intron -    22484847 chr1:89485083(-) A-G intron -    22484847 chr1:89485136(-) A-G intron -    22484847 chr1:89485146(-) A-G intron -    22484847 chr1:89485147(-) A-G intron -    22484847 chr1:89485827(-) A-G intron -    22484847 chr1:89485835(-) A-G intron -    22484847 chr1:89485836(-) A-G intron -    22484847 chr1:89485862(-) A-G intron -    22484847 chr1:89485870(-) A-G intron -    22484847 chr1:89485886(-) A-G intron -    22484847 chr1:89485917(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	GBP3	chr1:89473405-89473406(-) m6A 3'UTR//exon       27773535 chr1:89473441-89473442(-) m6A 3'UTR//CDS//exon       27773535 chr1:89473456-89473457(-) m6A 3'UTR//CDS//exon       27773535 chr1:89473532-89473533(-) m6A 3'UTR//CDS//exon       24981863//28052920//27773535 chr1:89474546-89474547(-) m6A 3'UTR//intron       24981863//28052920//27773535 chr1:89474565-89474566(-) m6A 3'UTR//intron       24981863//27773535 chr1:89474635-89474636(-) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:89474649-89474650(-) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:89474707-89474708(-) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:89474716-89474717(-) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:89475109-89475110(-) m6A 3'UTR//CDS//exon       24981863//27773535 chr1:89475113-89475114(-) m6A 3'UTR//CDS//exon       27773535//22575960 chr1:89475158-89475159(-) m6A 3'UTR//CDS//exon       27773535 chr1:89486344-89486345(-) m6A CDS//exon//intron       27773535 chr1:89486357-89486358(-) m6A CDS//exon//intron       27773535 chr1:89486405-89486406(-) m6A 5'UTR//exon//intron       24981863//27773535 chr1:89486417-89486418(-) m6A 5'UTR//exon//intron       24981863//27773535 chr1:89488384-89488385(-) m6A 5'UTR//exon       24981863//27773535 chr1:89488398-89488399(-) m6A 5'UTR//exon       24981863//27773535

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     -
	GBP3	Exosome Blood     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: hsa-miR-519d-3p
Interactor2: GBP3

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).