Detail Information

Basic Information:


  VIRBase ID:  

HHID00069646

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-1294:           VPS13C:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-1294 VPS13C
miRBase
Accession/Entrez ID		 MIMAT0005884 54832
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - PARK23

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-1294
rs1162939290 chr5:154347163    G/T
rs1179835339 chr5:154347171    G/GTATA
rs1237976003 chr5:154347166    T/C
rs1255234532 chr5:154347174    T/A
rs1465013068 chr5:154347169    T/C
rs189565536 chr5:154347168    G/T
rs1211754242 chr5:154347158    G/A
rs1341512450 chr5:154347155    T/G

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR VPS13C
chr15:62153340(-) A-I      intronic
chr15:62153337(-) A-I      intronic
chr15:62153328(-) A-I      intronic
chr15:62153319(-) A-I      intronic
chr15:62153282(-) A-I      intronic
chr15:62153276(-) A-I      intronic
chr15:62153263(-) A-I      intronic
chr15:62153266(-) A-I      intronic
chr15:62153271(-) A-I      intronic
chr15:62154236(-) A-I      intronic
chr15:62153365(-) A-I      intronic
chr15:62151389(-) A-I      intronic
chr15:62154055(-) A-I      intronic
chr15:62153399(-) A-I      intronic
chr15:62154187(-) A-I      intronic
chr15:62154277(-) A-I      intronic
chr15:62262874(-) A-I      intronic
chr15:62206656(-) A-I      intronic
chr15:62153804(-) A-I      intronic
chr15:62154048(-) A-I      intronic
chr15:62153378(-) A-I      intronic
chr15:62154151(-) A-I      intronic
chr15:62206659(-) A-I      intronic
chr15:62153257(-) A-I      intronic
chr15:62206660(-) A-I      intronic
chr15:62153355(-) A-I      intronic
chr15:62206667(-) A-I      intronic
chr15:62151397(-) A-I      intronic
chr15:62153835(-) A-I      intronic
chr15:62206862(-) A-I      intronic
chr15:62206686(-) A-I      intronic
chr15:62206705(-) A-I      intronic
chr15:62206849(-) A-I      intronic
chr15:62206953(-) A-I      intronic
chr15:62206987(-) A-I      intronic
chr15:62206955(-) A-I      intronic
chr15:62262868(-) A-I      intronic
chr15:62153250(-) A-I      intronic
chr15:62206888(-) A-I      intronic
chr15:62277548(-) A-I      intronic
chr15:62277567(-) A-I      intronic
chr15:62277593(-) A-I      intronic
chr15:62153259(-) A-I      intronic
chr15:62273950(-) A-I      intronic
chr15:62154217(-) A-I      intronic
chr15:62153191(-) A-I      intronic
chr15:62229785(-) A-I      intronic
chr15:62153350(-) A-I      intronic
chr15:62153173(-) A-I      intronic
chr15:62153196(-) A-I      intronic
chr15:62277584(-) A-I      intronic
chr15:62154094(-) A-I      intronic
chr15:62153199(-) A-I      intronic
chr15:62286894(-) A-I      intronic
chr15:62153213(-) A-I      intronic
chr15:62153289(-) A-I      intronic
chr15:62153363(-) A-I      intronic
chr15:62232081(-) A-I      intronic
chr15:62153386(-) A-I      intronic
chr15:62153436(-) A-I      intronic
chr15:62154081(-) A-I      intronic
chr15:62154155(-) A-I      intronic
chr15:62146119(-) A-I      3'UTR
chr15:62206685(-) A-I      intronic
chr15:62154252(-) A-I      intronic
chr15:62206652(-) A-I      intronic
chr15:62206628(-) A-I      intronic
chr15:62232111(-) A-I      intronic
chr15:62153332(-) A-I      intronic
chr15:62154136(-) A-I      intronic
chr15:62151327(-) A-I      intronic
chr15:62153307(-) A-I      intronic
chr15:62232142(-) A-I      intronic
chr15:62154167(-) A-I      intronic
chr15:62333932(-) A-I      intronic
chr15:62154199(-) A-I      intronic
chr15:62262812(-) A-I      intronic
chr15:62262879(-) A-I      intronic
chr15:62153394(-) A-I      intronic
chr15:62153293(-) A-I      intronic
chr15:62161454(-) A-I      intronic
chr15:62154042(-) A-I      intronic
chr15:62153834(-) A-I      intronic
chr15:62154056(-) A-I      intronic
chr15:62154293(-) A-I      intronic
chr15:62154082(-) A-I      intronic
chr15:62154102(-) A-I      intronic
chr15:62207060(-) A-I      intronic
chr15:62154171(-) A-I      intronic
chr15:62153821(-) A-I      intronic
chr15:62277588(-) A-I      intronic
chr15:62206605(-) A-I      intronic
chr15:62153190(-) A-I      intronic
chr15:62232054(-) A-I      intronic
chr15:62153443(-) A-I      intronic
chr15:62153875(-) A-I      intronic
chr15:62153275(-) A-I      intronic
chr15:62282847(-) A-I      intronic
chr15:62154133(-) A-I      intronic
chr15:62333937(-) A-I      intronic
chr15:62206856(-) A-I      intronic
chr15:62153375(-) A-I      intronic
chr15:62154150(-) A-I      intronic
chr15:62153872(-) A-I      intronic
chr15:62286885(-) A-I      intronic
chr15:62206602(-) A-I      intronic
chr15:62154297(-) A-I      intronic
chr15:62153435(-) A-I      intronic
chr15:62153356(-) A-I      intronic
chr15:62153325(-) A-I      intronic
chr15:62229945(-) A-I      intronic
chr15:62153298(-) A-I      intronic
chr15:62263678(-) A-I      intronic
chr15:62206511(-) A-I      intronic
chr15:62206892(-) A-I      intronic
chr15:62154285(-) A-I      intronic
chr15:62153430(-) A-I      intronic
chr15:62154077(-) A-I      intronic
chr15:62154242(-) A-I      intronic
chr15:62154054(-) A-I      intronic
chr15:62153569(-) A-I      intronic
chr15:62154069(-) A-I      intronic
chr15:62206522(-) A-I      intronic
chr15:62206954(-) A-I      intronic
chr15:62153420(-) A-I      intronic
chr15:62153871(-) A-I      intronic
chr15:62153510(-) A-I      intronic
chr15:62153836(-) A-I      intronic
chr15:62206865(-) A-I      intronic
chr15:62206546(-) A-I      intronic
chr15:62153258(-) A-I      intronic
chr15:62154190(-) A-I      intronic
chr15:62154216(-) A-I      intronic
chr15:62153329(-) A-I      intronic
chr15:62161455(-) A-I      intronic
chr15:62206620(-) A-I      intronic
chr15:62344640(-) A-I      intronic
chr15:62151349(-) A-I      intronic
chr15:62206845(-) A-I      intronic
chr15:62154095(-) A-I      intronic
chr15:62206551(-) A-I      intronic
chr15:62232065(-) A-I      intronic
chr15:62206576(-) A-I      intronic
chr15:62153171(-) A-I      intronic
chr15:62263466(-) A-I      intronic
chr15:62154116(-) A-I      intronic
chr15:62146000(-) A-I      3'UTR
chr15:62145978(-) A-I      3'UTR
chr15:62146207(-) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED VPS13C
chr15:62153258(-) A-I intron -    22327324
chr15:62153325(-) A-I intron -    22327324
chr15:62153355(-) A-I intron -    22327324
chr15:62153420(-) A-I intron -    22327324
chr15:62153834(-) A-I intron -    22327324
chr15:62154151(-) A-I intron -    22327324
chr15:62154167(-) A-I intron -    22327324
chr15:62151327(-) A-G intron -    22484847
chr15:62153191(-) A-G intron -    22484847
chr15:62153250(-) A-G intron -    22484847
chr15:62153257(-) A-G intron -    22484847
chr15:62153259(-) A-G intron -    22484847
chr15:62153275(-) A-G intron -    22484847
chr15:62153325(-) A-G intron -    22484847
chr15:62153350(-) A-G intron -    22484847
chr15:62153355(-) A-G intron -    22484847
chr15:62153420(-) A-G intron -    22484847
chr15:62153430(-) A-G intron -    22484847
chr15:62153435(-) A-G intron -    22484847
chr15:62153834(-) A-G intron -    22484847
chr15:62153836(-) A-G intron -    22484847
chr15:62153872(-) A-G intron -    22484847
chr15:62154094(-) A-G intron -    22484847
chr15:62154102(-) A-G intron -    22484847
chr15:62154151(-) A-G intron -    22484847
chr15:62154167(-) A-G intron -    22484847
chr15:62154199(-) A-G intron -    22484847
chr15:62154216(-) A-G intron -    22484847
chr15:62154217(-) A-G intron -    22484847
chr15:62154242(-) A-G intron -    22484847
chr15:62154285(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase VPS13C
chr15:62146424-62146425(-) m6A 3'UTR//exon       27773535
chr15:62146572-62146573(-) m6A 3'UTR//exon       24981863
chr15:62146620-62146621(-) m6A 3'UTR//exon       24981863//27371828
chr15:62146648-62146649(-) m6A 3'UTR//exon       24981863//27371828
chr15:62146673-62146674(-) m6A CDS//exon       24981863//27371828
chr15:62146682-62146683(-) m6A CDS//exon       24981863//27371828
chr15:62146718-62146719(-) m6A CDS//exon       27371828
chr15:62159659-62159660(-) m6A 3'UTR//intron       -
chr15:62164197-62164198(-) m6A CDS       24209618//24981863
chr15:62165478-62165479(-) m6A CDS       24209618//24981863//27371828
chr15:62165538-62165539(-) m6A CDS       24981863//27371828
chr15:62207944-62207945(-) m6A CDS//exon       22608085
chr15:62208101-62208102(-) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr15:62208111-62208112(-) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr15:62208208-62208209(-) m6A CDS//exon       24284625//24981863//22608085
chr15:62208217-62208218(-) m6A CDS//exon       24284625//24981863//22608085
chr15:62212835-62212836(-) m6A CDS       27773535
chr15:62214166-62214167(-) m6A CDS       27773535
chr15:62214633-62214634(-) m6A CDS       24981863//22608085
chr15:62214687-62214688(-) m6A CDS       22608085
chr15:62214694-62214695(-) m6A CDS       22608085
chr15:62214766-62214767(-) m6A CDS       24981863//22608085
chr15:62316006-62316007(-) m6A CDS//intron       24981863
chr15:62316018-62316019(-) m6A CDS//intron       24981863
chr15:62320567-62320568(-) m6A CDS//intron       24981863
chr15:62320582-62320583(-) m6A CDS//intron       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-1294
Exosome Plasma     23663360
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Serum     24797360
Microvesicle Colon cancer cell line (LIM1863)|Fibroblasts|Mesenchymal stem cells     -
VPS13C
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)|K562 cells     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Insoluble cytoplasm HCC cell line (HepG2)     -
Membrane HCC cell line (HepG2)     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus Colon cancer cells     24393600
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-1294
Interactor2: VPS13C

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.

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