Detail Information

Basic Information:


  VIRBase ID:  

HHID00065583

  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:           SHCBP1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-223-5p SHCBP1
miRBase
Accession/Entrez ID		 MIMAT0004570 79801
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - PAL

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 SHCBP1
chr16:46614869(-) A-I      3'UTR
chr16:46614864(-) A-I      3'UTR
chr16:46614860(-) A-I      3'UTR
chr16:46614856(-) A-I      3'UTR
chr16:46614865(-) A-I      3'UTR
chr16:46614839(-) A-I      3'UTR
chr16:46614879(-) A-I      3'UTR
chr16:46614880(-) A-I      3'UTR
chr16:46614888(-) A-I      3'UTR
chr16:46630311(-) A-I      intronic
chr16:46642584(-) A-I      intronic
chr16:46630457(-) A-I      intronic
chr16:46630477(-) A-I      intronic
chr16:46630596(-) A-I      intronic
chr16:46630754(-) A-I      intronic
chr16:46630887(-) A-I      intronic
chr16:46642578(-) A-I      intronic
chr16:46642583(-) A-I      intronic
chr16:46630528(-) A-I      intronic
chr16:46630173(-) A-I      intronic
chr16:46642592(-) A-I      intronic
chr16:46642618(-) A-I      intronic
chr16:46642644(-) A-I      intronic
chr16:46630255(-) A-I      intronic
chr16:46630271(-) A-I      intronic
chr16:46630281(-) A-I      intronic
chr16:46630453(-) A-I      intronic
chr16:46649664(-) A-I      intronic
chr16:46630167(-) A-I      intronic
chr16:46630810(-) A-I      intronic
chr16:46643158(-) A-I      intronic
chr16:46631314(-) A-I      intronic
chr16:46643234(-) A-I      intronic
chr16:46614792(-) A-I      3'UTR
chr16:46644032(-) A-I      intronic
chr16:46630493(-) A-I      intronic
chr16:46631266(-) A-I      intronic
chr16:46630161(-) A-I      intronic
chr16:46652596(-) A-I      intronic
chr16:46630708(-) A-I      intronic
chr16:46630603(-) A-I      intronic
chr16:46634295(-) A-I      intronic
chr16:46652692(-) A-I      intronic
chr16:46630318(-) A-I      intronic
chr16:46643595(-) A-I      intronic
chr16:46636618(-) A-I      intronic
chr16:46634326(-) A-I      intronic
chr16:46630226(-) A-I      intronic
chr16:46631292(-) A-I      intronic
chr16:46644744(-) A-I      intronic
chr16:46630707(-) A-I      intronic
chr16:46630619(-) A-I      intronic
chr16:46631287(-) A-I      intronic
chr16:46630297(-) A-I      intronic
chr16:46630804(-) A-I      intronic
chr16:46643988(-) A-I      intronic
chr16:46630811(-) A-I      intronic
chr16:46643233(-) A-I      intronic
chr16:46631199(-) A-I      intronic
chr16:46630602(-) A-I      intronic
chr16:46630252(-) A-I      intronic
chr16:46631212(-) A-I      intronic
chr16:46630912(-) A-I      intronic
chr16:46649569(-) A-I      intronic
chr16:46631277(-) A-I      intronic
chr16:46643225(-) A-I      intronic
chr16:46630780(-) A-I      intronic
chr16:46630736(-) A-I      intronic
chr16:46643965(-) A-I      intronic
chr16:46630310(-) A-I      intronic
chr16:46630287(-) A-I      intronic
chr16:46614782(-) A-I      3'UTR
chr16:46614904(-) A-I      3'UTR
chr16:46614840(-) A-I      3'UTR
chr16:46614752(-) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SHCBP1
chr16:46643158(-) A-I intron -    22327324
chr16:46630603(-) A-G intron -    22484847
chr16:46630707(-) A-G intron -    22484847
chr16:46630708(-) A-G intron -    22484847
chr16:46630780(-) A-G intron -    22484847
chr16:46630804(-) A-G intron -    22484847
chr16:46630810(-) A-G intron -    22484847
chr16:46630811(-) A-G intron -    22484847
chr16:46631277(-) A-G intron -    22484847
chr16:46631287(-) A-G intron -    22484847
chr16:46643158(-) A-G intron -    22484847
chr16:46649664(-) A-G intron -    22484847
chr16:46629625(-) G-T intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SHCBP1
chr16:46615689-46615690(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr16:46615754-46615755(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr16:46615808-46615809(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr16:46615855-46615856(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr16:46615942-46615943(-) m6A CDS//exon       24284625//24209618//24981863//28052920//27773535//27371828//22608085
chr16:46617433-46617434(-) m6A CDS//exon       24284625//24209618//24981863//27773535//22608085
chr16:46617476-46617477(-) m6A CDS//exon       27773535//22608085
chr16:46652234-46652235(-) m6A CDS//exon       -
chr16:46654447-46654448(-) m6A exon//intron       24981863
chr16:46654764-46654765(-) m6A exon//intron       24981863
chr16:46654779-46654780(-) m1A exon//intron       26863196//26863410
chr16:46654801-46654802(-) m6A exon//intron       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     -
SHCBP1
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol HCC cell line (HepG2)|K562 cells     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-223-5p
Interactor2: SHCBP1

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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