Basic Information:

  VIRBase ID:  

HHID00072020

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-3121-3p:  MIMAT0014983          EDEM1:  NM_014674     

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Interactor Information:

	Interactor1	Interactor2
Symbol	hsa-miR-3121-3p	EDEM1
miRBase Accession/Entrez ID	MIMAT0014983	9695
Organism	Homo sapiens	Homo sapiens
Category	miRNA	mRNA
Alias	-	EDEM

ncRNA SNP information:

Resource	Symbol	SNP ID	SNP Position	Ref/Alt
miRNASNP-v3	hsa-miR-3121-3p	rs1006143795 chr1:180438334    T/C rs778817728 chr1:180438323    T/C rs887772082 chr1:180438327    C/T rs911596096 chr1:180438331    G/C

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	EDEM1	chr3:5237977(+) A-I      intronic chr3:5237956(+) A-I      intronic chr3:5237980(+) A-I      intronic chr3:5241778(+) A-I      intronic chr3:5238074(+) A-I      intronic chr3:5238003(+) A-I      intronic chr3:5237991(+) A-I      intronic chr3:5237983(+) A-I      intronic chr3:5237981(+) A-I      intronic chr3:5237870(+) A-I      intronic chr3:5237995(+) A-I      intronic chr3:5239924(+) A-I      intronic chr3:5239850(+) A-I      intronic chr3:5231492(+) A-I      intronic chr3:5237982(+) A-I      intronic chr3:5239833(+) A-I      intronic chr3:5238036(+) A-I      intronic chr3:5237899(+) A-I      intronic chr3:5235448(+) A-I      intronic chr3:5238035(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	EDEM1	chr3:5235300(+) G-T intron -    22484847 chr3:5237966(+) A-G intron -    22484847 chr3:5237982(+) A-G intron -    22484847 chr3:5238035(+) A-G intron -    22484847 chr3:5238036(+) A-G intron -    22484847 chr3:5239833(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	EDEM1	chr3:5229995-5229996(+) m6A 3'UTR//CDS//exon       24284625 chr3:5252851-5252852(+) m6A CDS//exon       27773535 chr3:5252880-5252881(+) m6A CDS//exon       27773535 chr3:5252921-5252922(+) m6A CDS//exon//intron       27773535 chr3:5253007-5253008(+) m6A exon//intron       24981863 chr3:5253042-5253043(+) m6A exon//intron       24981863 chr3:5255016-5255017(+) m6A CDS       - chr3:5255039-5255040(+) m6A CDS       - chr3:5255065-5255066(+) m6A CDS       - chr3:5255139-5255140(+) m6A CDS       - chr3:5255170-5255171(+) m6A CDS       - chr3:5257630-5257631(+) m6A 3'UTR       24284625//24981863 chr3:5257635-5257636(+) m6A 3'UTR       24284625//24981863 chr3:5257649-5257650(+) m6A 3'UTR       24284625//24981863 chr3:5257655-5257656(+) m6A 3'UTR       24284625//24981863 chr3:5257688-5257689(+) m6A 3'UTR       24284625//24981863 chr3:5257918-5257919(+) m6A 3'UTR       24284625//24981863//22608085 chr3:5258009-5258010(+) m6A 3'UTR       24981863 chr3:5260568-5260569(+) m6A 3'UTR       - chr3:5260619-5260620(+) m6A 3'UTR       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	hsa-miR-3121-3p	Exosome Plasma     23663360 Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     - Microvesicle Mesenchymal stem cells     -
	EDEM1	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)     - Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Membrane HCC cell line (HepG2)|K562 cells     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: hsa-miR-3121-3p
Interactor2: EDEM1

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.