Basic Information:

  VIRBase ID:  

HHID00067355

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-590-3p:  MIMAT0004801          PSMD13:  NM_002817     

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Interactor Information:

	Interactor1	Interactor2
Symbol	hsa-miR-590-3p	PSMD13
miRBase Accession/Entrez ID	MIMAT0004801	5719
Organism	Homo sapiens	Homo sapiens
Category	miRNA	mRNA
Alias	-	HSPC027//p40.5//Rpn9//S11

ncRNA SNP information:

Resource	Symbol	SNP ID	SNP Position	Ref/Alt
miRNASNP-v3	hsa-miR-590-3p	rs1435070247 chr7:74191262    G/T rs1554709913 chr7:74191261    T/C rs1554709916 chr7:74191263    T/C rs1554709918 chr7:74191268    G/A rs555659597 chr7:74191273    T/G rs6971711 chr7:74191269    C/T rs781868890 chr7:74191265    T/C rs781868890 chr7:74191265    T/G rs782545428 chr7:74191272    GTC/G rs782782687 chr7:74191264    A/G rs1554709912 chr7:74191255    AT/A

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	PSMD13	chr11:246307(+) A-I      intronic chr11:241203(+) A-I      intronic chr11:246301(+) A-I      intronic chr11:246480(+) A-I      intronic chr11:245059(+) A-I      intronic chr11:246311(+) A-I      intronic chr11:245152(+) A-I      intronic chr11:246315(+) A-I      intronic chr11:238560(+) A-I      intronic chr11:240388(+) A-I      intronic chr11:240893(+) A-I      intronic chr11:245070(+) A-I      intronic chr11:245005(+) A-I      intronic chr11:241281(+) A-I      intronic chr11:238580(+) A-I      intronic chr11:238591(+) A-I      intronic chr11:246337(+) A-I      intronic chr11:246316(+) A-I      intronic chr11:241208(+) A-I      intronic chr11:246227(+) A-I      intronic chr11:245217(+) A-I      intronic chr11:240901(+) A-I      intronic chr11:238653(+) A-I      intronic chr11:245080(+) A-I      intronic chr11:241196(+) A-I      intronic chr11:244997(+) A-I      intronic chr11:238550(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	PSMD13	chr11:246311(+) A-G intron -    22484847 chr11:246315(+) A-G intron -    22484847 chr11:246316(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	PSMD13	chr11:237086-237087(+) m6A CDS//exon       24981863 chr11:251883-251884(+) m6A 3'UTR//CDS//exon//intron       22575960 chr11:252520-252521(+) m6A 3'UTR//CDS//exon       24209618//22575960 chr11:252558-252559(+) Gm 3'UTR//CDS//exon       - chr11:252727-252728(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr11:252745-252746(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr11:252750-252751(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr11:252925-252926(+) m6A 3'UTR//exon       27773535 chr11:252965-252966(+) m6A 3'UTR//exon       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	hsa-miR-590-3p	Exosome Plasma     24683445 Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     - Microvesicle Colon cancer cell line (LIM1863)|Fibroblasts|Mesenchymal stem cells     -
	PSMD13	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Nucleoplasm K562 cells     - Nucleus K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: hsa-miR-590-3p
Interactor2: PSMD13

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.