Detail Information

Basic Information:


  VIRBase ID:  

HHID00067396

  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:           TUBGCP3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-590-3p TUBGCP3
miRBase
Accession/Entrez ID		 MIMAT0004801 10426
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - 104p//ALP6//GCP3//Grip104//SPBC98//Spc98//Spc98p

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 TUBGCP3
chr13:113157789(-) A-I      intronic
chr13:113144746(-) A-I      intronic
chr13:113171455(-) A-I      intronic
chr13:113172159(-) A-I      intronic
chr13:113171500(-) A-I      intronic
chr13:113171469(-) A-I      intronic
chr13:113144763(-) A-I      intronic
chr13:113144773(-) A-I      intronic
chr13:113197382(-) A-I      intronic
chr13:113239977(-) A-I      intronic
chr13:113144632(-) A-I      intronic
chr13:113239974(-) A-I      intronic
chr13:113235852(-) A-I      intronic
chr13:113172097(-) A-I      intronic
chr13:113166620(-) A-I      intronic
chr13:113144751(-) A-I      intronic
chr13:113197381(-) A-I      intronic
chr13:113239978(-) A-I      intronic
chr13:113144642(-) A-I      intronic
chr13:113144708(-) A-I      intronic
chr13:113171385(-) A-I      intronic
chr13:113197364(-) A-I      intronic
chr13:113144707(-) A-I      intronic
chr13:113144646(-) A-I      intronic
chr13:113171499(-) A-I      intronic
chr13:113157054(-) A-I      intronic
chr13:113172096(-) A-I      intronic
chr13:113172020(-) A-I      intronic
chr13:113171511(-) A-I      intronic
chr13:113171468(-) A-I      intronic
chr13:113172002(-) A-I      intronic
chr13:113144672(-) A-I      intronic
chr13:113144675(-) A-I      intronic
chr13:113171459(-) A-I      intronic
chr13:113172161(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TUBGCP3
chr13:113144105-113144106(-) m6A exon//intron       27773535
chr13:113144131-113144132(-) m6A exon//intron       27773535
chr13:113153138-113153139(-) m6A 3'UTR//intron       27773535
chr13:113153373-113153374(-) m6A CDS       24981863
chr13:113179275-113179276(-) Cm intron       -
chr13:113210470-113210471(-) m6A CDS       27773535
chr13:113212626-113212627(-) Am CDS//exon       -
chr13:113212645-113212646(-) m6A CDS//exon       27773535
chr13:113213657-113213658(-) m6A CDS//exon       27773535
chr13:113242250-113242251(-) m6A CDS       27773536
chr13:113242280-113242281(-) m6A CDS       27773536
chr13:113242319-113242320(-) m6A 5'UTR       27773536//22575960

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     -
TUBGCP3
Chromatin K562 cells     -
Cytoplasm Nasopharyngeal carcinoma cells     20498841
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 Nasopharyngeal carcinoma cells     20498841
Nucleus HCC cell line (HepG2)|K562 cells     -
Ribosome HEK-293 cells     22199352
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-590-3p
Interactor2: TUBGCP3

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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