Detail Information

Basic Information:


  VIRBase ID:  

HHID00065509

  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:           CSNK1G3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-223-5p CSNK1G3
miRBase
Accession/Entrez ID		 MIMAT0004570 1456
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - CKI-gamma 3//CSNK1G3L

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 CSNK1G3
chr5:122909643(+) A-I      intronic
chr5:122946443(+) A-I      intronic
chr5:122861108(+) A-I      intronic
chr5:122861743(+) A-I      intronic
chr5:122861251(+) A-I      intronic
chr5:122875028(+) A-I      intronic
chr5:122909699(+) A-I      intronic
chr5:122861141(+) A-I      intronic
chr5:122909661(+) A-I      intronic
chr5:122875129(+) A-I      intronic
chr5:122861188(+) A-I      intronic
chr5:122949301(+) A-I      intronic
chr5:122858208(+) A-I      intronic
chr5:122861236(+) A-I      intronic
chr5:122861571(+) A-I      intronic
chr5:122946484(+) A-I      intronic
chr5:122865572(+) A-I      intronic
chr5:122861545(+) A-I      intronic
chr5:122883971(+) A-I      intronic
chr5:122861134(+) A-I      intronic
chr5:122910417(+) A-I      intronic
chr5:122861080(+) A-I      intronic
chr5:122861763(+) A-I      intronic
chr5:122949305(+) A-I      intronic
chr5:122874997(+) A-I      intronic
chr5:122861749(+) A-I      intronic
chr5:122861432(+) A-I      intronic
chr5:122861874(+) A-I      intronic
chr5:122910465(+) A-I      intronic
chr5:122861037(+) A-I      intronic
chr5:122910333(+) A-I      intronic
chr5:122861479(+) A-I      intronic
chr5:122909750(+) A-I      intronic
chr5:122861083(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED CSNK1G3
chr5:122847989(+) A-I exon 5'UTR    19478186
chr5:122861037(+) A-G intron -    22484847
chr5:122861080(+) A-G intron -    22484847
chr5:122861083(+) A-G intron -    22484847
chr5:122861134(+) A-G intron -    22484847
chr5:122861236(+) A-G intron -    22484847
chr5:122861479(+) A-G intron -    22484847
chr5:122861571(+) A-G intron -    22484847
chr5:122861749(+) A-G intron -    22484847
chr5:122861763(+) A-G intron -    22484847
chr5:122861871(+) A-G intron -    22484847
chr5:122861874(+) A-G intron -    22484847
chr5:122909644(+) A-G intron -    22484847
chr5:122909750(+) A-G intron -    22484847
chr5:122910417(+) A-G intron -    22484847
chr5:122946488(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase CSNK1G3
chr5:122847841-122847842(+) m6A 5'UTR       24981863
chr5:122848052-122848053(+) m6A 5'UTR//exon       24209618//24981863
chr5:122848206-122848207(+) m6A 5'UTR//exon       24209618//22608085
chr5:122848231-122848232(+) m6A 5'UTR//exon       24209618//24981863//22608085
chr5:122881156-122881157(+) m6A 5'UTR//exon//intron       24284625//24209618//24981863//26404942//22608085
chr5:122881174-122881175(+) m6A 5'UTR//exon//intron       24284625//24209618//24981863//26404942//22608085
chr5:122881204-122881205(+) m6A 5'UTR//exon//intron       24284625//24209618//24981863//26404942//27773535//22608085
chr5:122881350-122881351(+) m6A 5'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr5:122881376-122881377(+) m6A CDS//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr5:122881382-122881383(+) m6A CDS//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr5:122881425-122881426(+) m6A CDS//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr5:122881441-122881442(+) m6A CDS//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr5:122881476-122881477(+) m6A CDS//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr5:122881540-122881541(+) m6A exon//intron       24981863//22575960//22608085
chr5:122881569-122881570(+) m6A exon//intron       24981863//22608085
chr5:122909159-122909160(+) Tm CDS       -
chr5:122911507-122911508(+) m6A CDS       24981863
chr5:122911512-122911513(+) m6A CDS       24981863
chr5:122911572-122911573(+) m6A CDS       24981863//27773535
chr5:122911580-122911581(+) m6A CDS       24981863//27773535
chr5:122911598-122911599(+) m6A CDS       24981863//27773535
chr5:122911617-122911618(+) m6A CDS       24981863//27773535
chr5:122911639-122911640(+) m6A CDS       24981863//27773535
chr5:122940519-122940520(+) m6A CDS       24981863
chr5:122941049-122941050(+) m6A CDS//intron       24981863
chr5:122950069-122950070(+) m6A CDS       24284625//24981863
chr5:122950096-122950097(+) m6A 3'UTR       24284625//24981863
chr5:122950102-122950103(+) m6A 3'UTR       24284625//24981863
chr5:122950103-122950104(+) Cm 3'UTR       -
chr5:122950186-122950187(+) m6A 3'UTR       24981863//22608085
chr5:122950200-122950201(+) m6A 3'UTR       24981863//22608085
chr5:122950308-122950309(+) m6A 3'UTR       24981863

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     -
CSNK1G3
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells     -
Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-223-5p
Interactor2: CSNK1G3

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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