Basic Information:

  VIRBase ID:  

HHID00065520

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-223-5p:  MIMAT0004570          SMAD4:  NM_005359     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	hsa-miR-223-5p	SMAD4
miRBase Accession/Entrez ID	MIMAT0004570	4089
Organism	Homo sapiens	Homo sapiens
Category	miRNA	mRNA
Alias	-	DPC4//JIP//MADH4//MYHRS

ncRNA SNP information:

Resource	Symbol	SNP ID	SNP Position	Ref/Alt
miRNASNP-v3	hsa-miR-223-5p	rs1240009384 chrX:66018913    A/T rs1397275461 chrX:66018904    G/T rs1464475149 chrX:66018916    T/C rs761701581 chrX:66018906    C/G rs772305537 chrX:66018909    G/A rs774279244 chrX:66018895    C/T rs890919635 chrX:66018896    G/A

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SMAD4	chr18:48578306(+) A-I      intronic chr18:48578316(+) A-I      intronic chr18:48600534(+) A-I      intronic chr18:48565383(+) A-I      intronic chr18:48600546(+) A-I      intronic chr18:48565420(+) A-I      intronic chr18:48565430(+) A-I      intronic chr18:48600660(+) A-I      intronic chr18:48600620(+) A-I      intronic chr18:48600584(+) A-I      intronic chr18:48600566(+) A-I      intronic chr18:48600515(+) A-I      intronic chr18:48600494(+) A-I      intronic chr18:48600161(+) A-I      intronic chr18:48600119(+) A-I      intronic chr18:48600067(+) A-I      intronic chr18:48570615(+) A-I      intronic chr18:48565362(+) A-I      intronic chr18:48600066(+) A-I      intronic chr18:48595694(+) A-I      intronic chr18:48595551(+) A-I      intronic chr18:48595530(+) A-I      intronic chr18:48570618(+) A-I      intronic chr18:48593847(+) A-I      intronic chr18:48595195(+) A-I      intronic chr18:48595225(+) A-I      intronic chr18:48595093(+) A-I      intronic chr18:48562405(+) A-I      intronic chr18:48595535(+) A-I      intronic chr18:48568917(+) A-I      intronic chr18:48595180(+) A-I      intronic chr18:48563434(+) A-I      intronic chr18:48595170(+) A-I      intronic chr18:48600703(+) A-I      intronic chr18:48600081(+) A-I      intronic chr18:48595087(+) A-I      intronic chr18:48562381(+) A-I      intronic chr18:48570614(+) A-I      intronic chr18:48595746(+) A-I      intronic chr18:48600630(+) A-I      intronic chr18:48595261(+) A-I      intronic chr18:48600580(+) A-I      intronic chr18:48595737(+) A-I      intronic chr18:48600601(+) A-I      intronic chr18:48595733(+) A-I      intronic chr18:48600486(+) A-I      intronic chr18:48565357(+) A-I      intronic chr18:48607095(+) A-I      3'UTR chr18:48593963(+) A-I      intronic chr18:48600587(+) A-I      intronic chr18:48568940(+) A-I      intronic chr18:48568907(+) A-I      intronic chr18:48595141(+) A-I      intronic chr18:48595616(+) A-I      intronic chr18:48563346(+) A-I      intronic chr18:48600040(+) A-I      intronic chr18:48600084(+) A-I      intronic chr18:48562477(+) A-I      intronic chr18:48568854(+) A-I      intronic chr18:48600510(+) A-I      intronic chr18:48561789(+) A-I      intronic chr18:48570546(+) A-I      intronic chr18:48563433(+) A-I      intronic chr18:48600585(+) A-I      intronic chr18:48595628(+) A-I      intronic chr18:48595626(+) A-I      intronic chr18:48600567(+) A-I      intronic chr18:48595266(+) A-I      intronic chr18:48595682(+) A-I      intronic chr18:48593863(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	SMAD4	chr18:48570896(+) A-I intron -    21960545 chr18:48600040(+) A-I intron -    21960545 chr18:48565356(+) A-G intron -    22484847 chr18:48565357(+) A-G intron -    22484847 chr18:48595087(+) A-G intron -    22484847 chr18:48600486(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SMAD4	chr18:48556546-48556547(+) m6A 5'UTR//intron       24981863 chr18:48573383-48573384(+) m6A 5'UTR//intron       24284625//24981863//26404942//22608085 chr18:48573406-48573407(+) m6A 5'UTR//intron       24284625//24981863//26404942//22608085 chr18:48573412-48573413(+) m6A 5'UTR//intron       24284625//24981863//26404942//22608085 chr18:48573420-48573421(+) m6A CDS//intron       24284625//24981863//26404942//22608085 chr18:48573496-48573497(+) m6A CDS//intron       24284625//24981863//26404942//22608085 chr18:48573515-48573516(+) m6A CDS//intron       24284625//24981863//26404942//22608085 chr18:48581199-48581200(+) m6A CDS//exon       - chr18:48581223-48581224(+) m6A CDS//exon       - chr18:48581236-48581237(+) m6A CDS//exon       - chr18:48581275-48581276(+) m6A CDS//exon       - chr18:48584534-48584535(+) m6A CDS//exon//intron       - chr18:48584567-48584568(+) m6A CDS//exon//intron       - chr18:48584726-48584727(+) m6A CDS//exon//intron       24981863 chr18:48584738-48584739(+) m6A CDS//exon//intron       24284625//24981863 chr18:48584818-48584819(+) m6A CDS//exon//intron       24284625//24981863 chr18:48591912-48591913(+) Gm CDS//exon//intron       - chr18:48604707-48604708(+) m6A 3'UTR//CDS//exon       24981863//22608085 chr18:48604722-48604723(+) m6A 3'UTR//CDS//exon       24981863//22608085 chr18:48604738-48604739(+) m6A 3'UTR//CDS//exon       24981863//22608085 chr18:48604817-48604818(+) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//26404942//22608085 chr18:48604832-48604833(+) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//26404942//22608085 chr18:48604879-48604880(+) m6A 3'UTR//exon       24284625//24209618//24981863//26404942//22608085 chr18:48604986-48604987(+) m6A 3'UTR//exon       24981863//22608085 chr18:48604992-48604993(+) m6A 3'UTR//exon       24981863//22608085 chr18:48605003-48605004(+) m6A 3'UTR//exon       24981863//22608085 chr18:48605027-48605028(+) m6A 3'UTR//exon       24981863//22608085 chr18:48605053-48605054(+) Am 3'UTR//exon       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	hsa-miR-223-5p	Exosome Primary dendritic cells     21505438 Exosome Breast milk     22211110 Exosome Plasma     23663360 Exosome B cell lymphoma cell lines|EBV-transformed lymphoblastoid B cells     25242326 Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     - Microvesicle Fibroblasts|Mesenchymal stem cells     -
	SMAD4	Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Insoluble cytoplasm HCC cell line (HepG2)     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus K562 cells     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: hsa-miR-223-5p
Interactor2: SMAD4

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.