Detail Information

Basic Information:


  VIRBase ID:  

HHID00063600

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-28-3p:           ATP2B1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-28-3p ATP2B1
miRBase
Accession/Entrez ID		 MIMAT0004502 490
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - PMCA1//PMCA1kb

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-28-3p
rs1171800557 chr3:188688855    A/C
rs1204710407 chr3:188688834    C/T
rs1403809755 chr3:188688851    C/T
rs368910045 chr3:188688843    G/C
rs368910045 chr3:188688843    G/T
rs375704067 chr3:188688850    C/T
rs750403936 chr3:188688844    T/G
rs758203780 chr3:188688847    G/A
rs78547906 chr3:188688848    C/T
rs1239471924 chr3:188688836    C/A
rs778663459 chr3:188688841    T/C

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR ATP2B1
chr12:90037726(-) A-I      intronic
chr12:90007976(-) A-I      intronic
chr12:90036649(-) A-I      intronic
chr12:90045223(-) A-I      intronic
chr12:90045268(-) A-I      intronic
chr12:90037896(-) A-I      intronic
chr12:90037893(-) A-I      intronic
chr12:90037806(-) A-I      intronic
chr12:90037694(-) A-I      intronic
chr12:90036561(-) A-I      intronic
chr12:90036497(-) A-I      intronic
chr12:90007033(-) A-I      intronic
chr12:90022140(-) A-I      intronic
chr12:90008115(-) A-I      intronic
chr12:90045340(-) A-I      intronic
chr12:90008080(-) A-I      intronic
chr12:90037787(-) A-I      intronic
chr12:90045324(-) A-I      intronic
chr12:90037799(-) A-I      intronic
chr12:90036654(-) A-I      intronic
chr12:90037622(-) A-I      intronic
chr12:90036560(-) A-I      intronic
chr12:90037682(-) A-I      intronic
chr12:90018880(-) A-I      intronic
chr12:90008004(-) A-I      intronic
chr12:90036502(-) A-I      intronic
chr12:90007004(-) A-I      intronic
chr12:90031249(-) A-I      intronic
chr12:90031303(-) A-I      intronic
chr12:90036661(-) A-I      intronic
chr12:90037719(-) A-I      intronic
chr12:90008111(-) A-I      intronic
chr12:90008020(-) A-I      intronic
chr12:90031388(-) A-I      intronic
chr12:90036467(-) A-I      intronic
chr12:89995988(-) A-I      intronic
chr12:90007008(-) A-I      intronic
chr12:90037610(-) A-I      intronic
chr12:90031352(-) A-I      intronic
chr12:90037604(-) A-I      intronic
chr12:90008017(-) A-I      intronic
chr12:90046639(-) A-I      intronic
chr12:90008116(-) A-I      intronic
chr12:90033024(-) A-I      intronic
chr12:90046725(-) A-I      intronic
chr12:90046705(-) A-I      intronic
chr12:90037880(-) A-I      intronic
chr12:90045272(-) A-I      intronic
chr12:90037733(-) A-I      intronic
chr12:90046714(-) A-I      intronic
chr12:90037707(-) A-I      intronic
chr12:90036559(-) A-I      intronic
chr12:90002077(-) A-I      intronic
chr12:90006859(-) A-I      intronic
chr12:90037816(-) A-I      intronic
chr12:90006854(-) A-I      intronic
chr12:90031307(-) A-I      intronic
chr12:90036564(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED ATP2B1
chr12:90008004(-) A-G intron -    22484847
chr12:90036467(-) A-G intron -    22484847
chr12:90008116(-) A-G intron -    22484847
chr12:90013395(-) A-T intron -    22484847
chr12:90033137(-) G-A intron -    22484847
chr12:90036559(-) A-G intron -    22484847
chr12:90036560(-) A-G intron -    22484847
chr12:90036564(-) A-G intron -    22484847
chr12:90036661(-) A-G intron -    22484847
chr12:90037733(-) A-G intron -    22484847
chr12:90037799(-) A-G intron -    22484847
chr12:90037816(-) A-G intron -    22484847
chr12:90037880(-) A-G intron -    22484847
chr12:90045324(-) A-G intron -    22484847
chr12:90046610(-) T-C intron -    22484847
chr12:90046705(-) A-G intron -    22484847
chr12:90046714(-) A-G intron -    22484847
chr12:90046787(-) G-A intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase ATP2B1
chr12:89984406-89984407(-) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr12:89984416-89984417(-) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr12:89984479-89984480(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984537-89984538(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984549-89984550(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984583-89984584(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984644-89984645(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984657-89984658(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984681-89984682(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984708-89984709(-) m6A 3'UTR       24284625//24209618//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984718-89984719(-) m6A 3'UTR       24284625//24209618//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984771-89984772(-) m6A 3'UTR//CDS       24284625//24209618//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89984821-89984822(-) m6A 3'UTR//CDS       24284625//24209618//24981863//28052920//26404942//27773535//22575960//22608085
chr12:89985021-89985022(-) m6A 3'UTR//CDS       24284625//24981863//26404942//27773535
chr12:89993018-89993019(-) m6A CDS       26404942
chr12:90004294-90004295(-) m6A exon//intron       24981863
chr12:90004325-90004326(-) m6A exon//intron       24981863
chr12:90004381-90004382(-) m6A exon//intron       24981863
chr12:90010662-90010663(-) m6A CDS       26404942
chr12:90010668-90010669(-) m6A CDS       26404942
chr12:90010706-90010707(-) m6A CDS       26404942
chr12:90010731-90010732(-) m6A CDS       26404942
chr12:90010742-90010743(-) m6A CDS       26404942
chr12:90010762-90010763(-) m6A CDS       26404942
chr12:90010770-90010771(-) m6A CDS       26404942
chr12:90013951-90013952(-) m6A CDS       26404942
chr12:90013971-90013972(-) m6A CDS       26404942
chr12:90015406-90015407(-) m6A CDS       26404942
chr12:90015427-90015428(-) m6A CDS       24981863//26404942
chr12:90015464-90015465(-) m6A CDS       24981863//26404942
chr12:90015477-90015478(-) m6A CDS       24981863//26404942
chr12:90015483-90015484(-) m6A CDS       24981863//26404942
chr12:90015519-90015520(-) m6A CDS       26404942
chr12:90020255-90020256(-) m6A CDS       27773535
chr12:90020264-90020265(-) m6A CDS       24981863//27773535
chr12:90020340-90020341(-) m1A CDS       26863196
chr12:90021485-90021486(-) m6A CDS       24981863//28052920//27773535//22575960//22608085
chr12:90024359-90024360(-) m6A CDS       24981863//27773535
chr12:90024444-90024445(-) m6A 5'UTR//intron       24981863
chr12:90028861-90028862(-) m6A CDS       26404942
chr12:90028867-90028868(-) m6A CDS       26404942
chr12:90028897-90028898(-) m6A CDS       26404942
chr12:90028983-90028984(-) m6A CDS       26404942
chr12:90036051-90036052(-) m6A CDS//exon       26404942
chr12:90036119-90036120(-) m6A CDS//exon       27773535
chr12:90049470-90049471(-) m6A CDS//exon       24284625//25456834//24981863//27773535//22575960//22608085
chr12:90049586-90049587(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:90049616-90049617(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//22575960//22608085
chr12:90049646-90049647(-) m6A CDS//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr12:90049692-90049693(-) m6A 5'UTR//exon       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr12:90103004-90103005(-) m6A 5'UTR       24981863//27773536//22575960

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-28-3p
Exosome Primary dendritic cells|T cell line (J77)     21505438
Exosome Plasma     23663360
Exosome Blood|Breast milk|Colon tissue|Endothelial cells|Epithelial cells|Kidney tissue|Lymphoma tissue|Mast cells|Seminal fluid|Tongue tissue     -
Microvesicle Seminal plasma     23539611
Microvesicle Follicular fluid     23666971
Microvesicle Blood|Colon cancer cell line (LIM1863)|Fibroblasts|Mesenchymal stem cells|Urine     -
Mitochondrion Skeletal muscle myoblasts     21637849
Mitochondrion Cell line (HEK-293|HeLa)     22984580
Nucleus Neural progenitor cells     21363885
ATP2B1
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)|K562 cells     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
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     -
Ribosome HEK-293 cells     22199352

Related Drug Information:


Resource Symbol Drug Name PubChem ID PMID
NoncoRNA hsa-miR-28-3p
Doxorubicin 31703       25698578
Resource Symbol Drug Name PubChem ID
RNAactDrug hsa-miR-28-3p
Panobinostat       6918837
Irinotecan       60838
Topotecan       60700
l-685,458       5479543
Palbociclib       5330286
Paclitaxel       36314
Dovitinib       135398510
Crizotinib       11626560

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-28-3p
Interactor2: ATP2B1

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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