Detail Information

Basic Information:


  VIRBase ID:  

HHID00059749

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-500a-3p:           BNIP2:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-500a-3p BNIP2
miRBase
Accession/Entrez ID		 MIMAT0002871 663
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - BNIP-2//NIP2

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-500a-3p
rs782355787 chrX:50008482    A/G
rs781884483 chrX:50008488    C/G
rs782187953 chrX:50008486    AC/A
rs782715546 chrX:50008487    C/T
rs995124308 chrX:50008483    T/C

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR BNIP2
chr15:59979711(-) A-I      intronic
chr15:59968533(-) A-I      intronic
chr15:59958738(-) A-I      intronic
chr15:59958718(-) A-I      intronic
chr15:59958703(-) A-I      intronic
chr15:59979728(-) A-I      intronic
chr15:59973780(-) A-I      intronic
chr15:59979729(-) A-I      intronic
chr15:59974439(-) A-I      intronic
chr15:59979764(-) A-I      intronic
chr15:59958744(-) A-I      intronic
chr15:59968537(-) A-I      intronic
chr15:59973821(-) A-I      intronic
chr15:59966027(-) A-I      intronic
chr15:59979707(-) A-I      intronic
chr15:59979724(-) A-I      intronic
chr15:59979749(-) A-I      intronic
chr15:59966096(-) A-I      intronic
chr15:59973822(-) A-I      intronic
chr15:59967401(-) A-I      intronic
chr15:59973824(-) A-I      intronic
chr15:59956745(-) A-I      intronic
chr15:59974363(-) A-I      intronic
chr15:59974369(-) A-I      intronic
chr15:59974443(-) A-I      intronic
chr15:59974341(-) A-I      intronic
chr15:59974377(-) A-I      intronic
chr15:59974418(-) A-I      intronic
chr15:59974343(-) A-I      intronic
chr15:59974360(-) A-I      intronic
chr15:59974362(-) A-I      intronic
chr15:59974469(-) A-I      intronic
chr15:59974321(-) A-I      intronic
chr15:59974404(-) A-I      intronic
chr15:59974378(-) A-I      intronic
chr15:59965518(-) A-I      intronic
chr15:59973071(-) A-I      intronic
chr15:59966024(-) A-I      intronic
chr15:59978552(-) A-I      intronic
chr15:59957661(-) A-I      intronic
chr15:59957669(-) A-I      intronic
chr15:59957687(-) A-I      intronic
chr15:59957714(-) A-I      intronic
chr15:59958640(-) A-I      intronic
chr15:59958686(-) A-I      intronic
chr15:59958700(-) A-I      intronic
chr15:59958754(-) A-I      intronic
chr15:59958758(-) A-I      intronic
chr15:59958779(-) A-I      intronic
chr15:59965450(-) A-I      intronic
chr15:59965559(-) A-I      intronic
chr15:59967263(-) A-I      intronic
chr15:59967326(-) A-I      intronic
chr15:59968519(-) A-I      intronic
chr15:59968521(-) A-I      intronic
chr15:59973864(-) A-I      intronic
chr15:59973873(-) A-I      intronic
chr15:59978576(-) A-I      intronic
chr15:59979177(-) A-I      intronic
chr15:59979611(-) A-I      intronic
chr15:59957752(-) A-I      intronic
chr15:59973858(-) A-I      intronic
chr15:59979159(-) A-I      intronic
chr15:59956653(-) A-I      intronic
chr15:59965476(-) A-I      intronic
chr15:59964544(-) A-I      intronic
chr15:59968457(-) A-I      intronic
chr15:59966085(-) A-I      intronic
chr15:59966069(-) A-I      intronic
chr15:59957684(-) A-I      intronic
chr15:59966057(-) A-I      intronic
chr15:59968655(-) A-I      intronic
chr15:59974474(-) A-I      intronic
chr15:59973772(-) A-I      intronic
chr15:59965452(-) A-I      intronic
chr15:59964166(-) A-I      intronic
chr15:59968546(-) A-I      intronic
chr15:59957697(-) A-I      intronic
chr15:59979715(-) A-I      intronic
chr15:59964555(-) A-I      intronic
chr15:59967282(-) A-I      intronic
chr15:59974283(-) A-I      intronic
chr15:59973819(-) A-I      intronic
chr15:59957462(-) A-I      intronic
chr15:59957341(-) A-I      intronic
chr15:59956709(-) A-I      intronic
chr15:59956710(-) A-I      intronic
chr15:59966167(-) A-I      intronic
chr15:59956748(-) A-I      intronic
chr15:59956785(-) A-I      intronic
chr15:59957271(-) A-I      intronic
chr15:59973839(-) A-I      intronic
chr15:59957297(-) A-I      intronic
chr15:59957461(-) A-I      intronic
chr15:59953381(-) A-I      3'UTR
chr15:59973715(-) A-I      intronic
chr15:59956719(-) A-I      intronic
chr15:59966065(-) A-I      intronic
chr15:59968497(-) A-I      intronic
chr15:59973753(-) A-I      intronic
chr15:59956692(-) A-I      intronic
chr15:59974425(-) A-I      intronic
chr15:59956852(-) A-I      intronic
chr15:59957406(-) A-I      intronic
chr15:59967193(-) A-I      intronic
chr15:59957803(-) A-I      intronic
chr15:59973756(-) A-I      intronic
chr15:59964503(-) A-I      intronic
chr15:59964666(-) A-I      intronic
chr15:59966122(-) A-I      intronic
chr15:59967336(-) A-I      intronic
chr15:59966030(-) A-I      intronic
chr15:59973847(-) A-I      intronic
chr15:59956713(-) A-I      intronic
chr15:59965829(-) A-I      intronic
chr15:59979094(-) A-I      intronic
chr15:59958803(-) A-I      intronic
chr15:59964119(-) A-I      intronic
chr15:59967339(-) A-I      intronic
chr15:59972826(-) A-I      intronic
chr15:59964562(-) A-I      intronic
chr15:59973888(-) A-I      intronic
chr15:59973750(-) A-I      intronic
chr15:59979823(-) A-I      intronic
chr15:59965807(-) A-I      intronic
chr15:59966165(-) A-I      intronic
chr15:59965713(-) A-I      intronic
chr15:59968494(-) A-I      intronic
chr15:59957300(-) A-I      intronic
chr15:59956853(-) A-I      intronic
chr15:59965514(-) A-I      intronic
chr15:59973809(-) A-I      intronic
chr15:59957363(-) A-I      intronic
chr15:59965519(-) A-I      intronic
chr15:59974440(-) A-I      intronic
chr15:59967746(-) A-I      intronic
chr15:59973805(-) A-I      intronic
chr15:59968660(-) A-I      intronic
chr15:59968587(-) A-I      intronic
chr15:59966083(-) A-I      intronic
chr15:59965449(-) A-I      intronic
chr15:59973733(-) A-I      intronic
chr15:59967620(-) A-I      intronic
chr15:59956648(-) A-I      intronic
chr15:59966263(-) A-I      intronic
chr15:59979822(-) A-I      intronic
chr15:59966105(-) A-I      intronic
chr15:59967385(-) A-I      intronic
chr15:59966177(-) A-I      intronic
chr15:59965886(-) A-I      intronic
chr15:59978556(-) A-I      intronic
chr15:59964570(-) A-I      intronic
chr15:59968607(-) A-I      intronic
chr15:59979050(-) A-I      intronic
chr15:59973716(-) A-I      intronic
chr15:59958809(-) A-I      intronic
chr15:59973913(-) A-I      intronic
chr15:59964565(-) A-I      intronic
chr15:59957546(-) A-I      intronic
chr15:59968634(-) A-I      intronic
chr15:59958814(-) A-I      intronic
chr15:59957351(-) A-I      intronic
chr15:59957424(-) A-I      intronic
chr15:59973720(-) A-I      intronic
chr15:59964643(-) A-I      intronic
chr15:59973786(-) A-I      intronic
chr15:59957368(-) A-I      intronic
chr15:59979214(-) A-I      intronic
chr15:59964640(-) A-I      intronic
chr15:59956673(-) A-I      intronic
chr15:59964538(-) A-I      intronic
chr15:59962378(-) A-I      intronic
chr15:59964624(-) A-I      intronic
chr15:59974284(-) A-I      intronic
chr15:59956826(-) A-I      intronic
chr15:59973825(-) A-I      intronic
chr15:59973745(-) A-I      intronic
chr15:59966120(-) A-I      intronic
chr15:59968511(-) A-I      intronic
chr15:59972832(-) A-I      intronic
chr15:59973765(-) A-I      intronic
chr15:59953366(-) A-I      3'UTR
chr15:59953300(-) A-I      3'UTR
chr15:59953279(-) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED BNIP2
chr15:59972920(-) A-I intron -    15342557
chr15:59973715(-) A-I intron -    15342557   //15258596
chr15:59973716(-) A-I intron -    15342557   //15258596
chr15:59973720(-) A-I intron -    15342557   //15258596
chr15:59973733(-) A-I intron -    15342557
chr15:59973745(-) A-I intron -    15342557   //15258596
chr15:59973750(-) A-I intron -    15258596
chr15:59973753(-) A-I intron -    15258596
chr15:59973765(-) A-I intron -    15258596
chr15:59973772(-) A-I intron -    15258596
chr15:59973786(-) A-I intron -    15342557   //15258596
chr15:59973805(-) A-I intron -    15342557   //15258596
chr15:59973809(-) A-I intron -    15342557   //15258596
chr15:59973819(-) A-I intron -    15342557   //15258596
chr15:59973839(-) A-I intron -    15342557   //15258596
chr15:59973847(-) A-I intron -    15342557   //15258596
chr15:59973858(-) A-I intron -    15342557   //15258596
chr15:59973888(-) A-I intron -    15342557   //15258596
chr15:59973913(-) A-I intron -    15342557   //15258596
chr15:59957368(-) A-I intron -    22327324
chr15:59966288(-) A-I intron -    21960545
chr15:59956719(-) A-G intron -    22484847
chr15:59956745(-) A-G intron -    22484847
chr15:59957368(-) A-G intron -    22484847
chr15:59957424(-) A-G intron -    22484847
chr15:59957684(-) A-G intron -    22484847
chr15:59957752(-) A-G intron -    22484847
chr15:59965452(-) A-G intron -    22484847
chr15:59965514(-) A-G intron -    22484847
chr15:59965518(-) A-G intron -    22484847
chr15:59966065(-) A-G intron -    22484847
chr15:59966105(-) A-G intron -    22484847
chr15:59968660(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase BNIP2
chr15:59956114-59956115(-) m6A 3'UTR//exon       24284625//24981863//22608085
chr15:59956134-59956135(-) m6A 3'UTR//exon       24284625//24981863//22608085
chr15:59956154-59956155(-) m6A 3'UTR//exon       24284625//24981863//22608085
chr15:59956243-59956244(-) m6A 3'UTR//exon       24284625//22575960//22608085
chr15:59956248-59956249(-) m6A 3'UTR//exon       24284625//22575960//22608085
chr15:59956273-59956274(-) m6A CDS//exon       24284625//22575960//22608085
chr15:59956285-59956286(-) m6A CDS//exon       24284625//22575960//22608085
chr15:59956294-59956295(-) m6A CDS//exon       24284625//22575960//22608085
chr15:59956306-59956307(-) m6A CDS//exon       24284625//22575960//22608085
chr15:59961156-59961157(-) Y CDS//exon       25219674
chr15:59970137-59970138(-) m6A 3'UTR//CDS//exon       26404942
chr15:59970165-59970166(-) m6A 3'UTR//CDS//exon       24981863//26404942
chr15:59970170-59970171(-) m6A 3'UTR//CDS//exon       24981863//26404942
chr15:59970265-59970266(-) m6A 3'UTR//CDS//exon       24981863
chr15:59970272-59970273(-) m6A 3'UTR//CDS//exon       24981863
chr15:59970302-59970303(-) m6A exon//intron       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-500a-3p
Exosome B cell line (Raji)|Primary dendritic cells     21505438
Exosome Brain tissue     23382797
Exosome Plasma     23663360
Exosome Human mast cell line (HMC-1)     24009880
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Plasma     23077538
Microvesicle Seminal plasma     23539611
Microvesicle Colon cancer cell line (LIM1863)|Fibroblasts|Mesenchymal stem cells|Urine     -
Mitochondrion Cell line (HEK-293|HeLa)     22984580
BNIP2
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Membrane HCC cell line (HepG2)     -
Nucleoplasm K562 cells     -
Nucleus Colon cancer cells     24393600
Nucleus HeLa-S3 cells|K562 cells     -
Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-500a-3p
Interactor2: BNIP2

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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