Basic Information:

  VIRBase ID:  

VHID00349963

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART13-3p:  MIMAT0003424          TBC1D20:  NM_144628     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART13-3p	TBC1D20
miRBase Accession/Entrez ID	MIMAT0003424	128637
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	C20orf140//WARBM4

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	TBC1D20	chr20:434350(-) A-I      intronic chr20:436795(-) A-I      intronic chr20:434358(-) A-I      intronic chr20:434346(-) A-I      intronic chr20:442115(-) A-I      intronic chr20:434328(-) A-I      intronic chr20:434314(-) A-I      intronic chr20:434338(-) A-I      intronic chr20:436754(-) A-I      intronic chr20:434399(-) A-I      intronic chr20:434400(-) A-I      intronic chr20:441026(-) A-I      intronic chr20:434489(-) A-I      intronic chr20:440993(-) A-I      intronic chr20:434006(-) A-I      intronic chr20:433996(-) A-I      intronic chr20:435407(-) A-I      intronic chr20:434830(-) A-I      intronic chr20:434775(-) A-I      intronic chr20:433994(-) A-I      intronic chr20:434257(-) A-I      intronic chr20:434586(-) A-I      intronic chr20:430921(-) A-I      intronic chr20:432166(-) A-I      intronic chr20:432396(-) A-I      intronic chr20:434583(-) A-I      intronic chr20:433228(-) A-I      intronic chr20:434287(-) A-I      intronic chr20:434327(-) A-I      intronic chr20:435493(-) A-I      intronic chr20:434262(-) A-I      intronic chr20:435558(-) A-I      intronic chr20:435562(-) A-I      intronic chr20:441055(-) A-I      intronic chr20:427096(-) A-I      intronic chr20:427876(-) A-I      intronic chr20:427877(-) A-I      intronic chr20:428300(-) A-I      intronic chr20:436137(-) A-I      intronic chr20:436150(-) A-I      intronic chr20:436883(-) A-I      intronic chr20:437926(-) A-I      intronic chr20:436692(-) A-I      intronic chr20:421490(-) A-I      ncRNA chr20:442168(-) A-I      intronic chr20:429440(-) A-I      intronic chr20:432210(-) A-I      intronic chr20:430226(-) A-I      intronic chr20:427257(-) A-I      intronic chr20:439229(-) A-I      intronic chr20:439207(-) A-I      intronic chr20:436493(-) A-I      intronic chr20:429735(-) A-I      intronic chr20:436454(-) A-I      intronic chr20:438064(-) A-I      intronic chr20:435490(-) A-I      intronic chr20:437817(-) A-I      intronic chr20:435444(-) A-I      intronic chr20:432851(-) A-I      intronic chr20:427788(-) A-I      intronic chr20:428180(-) A-I      intronic chr20:427807(-) A-I      intronic chr20:417512(-) A-I      3'UTR chr20:435453(-) A-I      intronic chr20:427690(-) A-I      intronic chr20:427314(-) A-I      intronic chr20:441006(-) A-I      intronic chr20:439012(-) A-I      intronic chr20:434263(-) A-I      intronic chr20:436760(-) A-I      intronic chr20:436226(-) A-I      intronic chr20:429762(-) A-I      intronic chr20:433093(-) A-I      intronic chr20:435412(-) A-I      intronic chr20:432440(-) A-I      intronic chr20:434835(-) A-I      intronic chr20:431932(-) A-I      intronic chr20:429669(-) A-I      intronic chr20:436041(-) A-I      intronic chr20:441031(-) A-I      intronic chr20:430908(-) A-I      intronic chr20:436272(-) A-I      intronic chr20:434466(-) A-I      intronic chr20:433201(-) A-I      intronic chr20:436753(-) A-I      intronic chr20:427683(-) A-I      intronic chr20:432418(-) A-I      intronic chr20:432172(-) A-I      intronic chr20:438122(-) A-I      intronic chr20:427415(-) A-I      intronic chr20:435349(-) A-I      intronic chr20:429394(-) A-I      intronic chr20:429629(-) A-I      intronic chr20:438065(-) A-I      intronic chr20:432391(-) A-I      intronic chr20:434763(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	TBC1D20	chr20:432393(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	TBC1D20	chr20:416128-416129(-) m6A 3'UTR//exon       27773535//22608085 chr20:416136-416137(-) m6A 3'UTR//exon       27773535//22608085 chr20:416207-416208(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416217-416218(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416242-416243(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416287-416288(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416311-416312(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416335-416336(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085 chr20:416424-416425(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22608085 chr20:416448-416449(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22608085 chr20:416523-416524(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//22608085 chr20:416549-416550(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//22608085 chr20:416622-416623(-) m6A 3'UTR//exon//intron       24284625//24209618//24981863//27773535//22608085 chr20:416789-416790(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535 chr20:416818-416819(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535 chr20:416837-416838(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535 chr20:417637-417638(-) m6A 3'UTR//exon//intron       24209618 chr20:417918-417919(-) m6A 3'UTR//exon//intron       27773535 chr20:418572-418573(-) m6A 3'UTR//exon//intron       27773535 chr20:418578-418579(-) m6A 3'UTR//exon//intron       27773535 chr20:418672-418673(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr20:418682-418683(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr20:418746-418747(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr20:418810-418811(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//27773536//22575960//22608085 chr20:418855-418856(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr20:418861-418862(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr20:418888-418889(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr20:419038-419039(-) m6A 3'UTR//exon//intron       24981863 chr20:419351-419352(-) m6A CDS//exon       24284625//25456834//24981863//27371828//27773536//22608085 chr20:419378-419379(-) m6A CDS//exon       24284625//25456834//24981863//26404942//27773535//27371828//27773536//22608085 chr20:419400-419401(-) m6A CDS//exon       24284625//25456834//24981863//28052920//26404942//27773535//27371828//27773536//22608085 chr20:419461-419462(-) m6A CDS//exon       24284625//25456834//24981863//28052920//27773535//27371828//27773536//22608085 chr20:419789-419790(-) m6A CDS//exon       24284625//25456834//24981863//27773535//27371828//22608085 chr20:419817-419818(-) m6A CDS//exon       24284625//24981863//27773535//27371828//22608085 chr20:419839-419840(-) m6A CDS//exon       24284625//24981863//27773535 chr20:419853-419854(-) m6A CDS//exon       24284625//24981863//27773535 chr20:419907-419908(-) m6A CDS//exon       27773535 chr20:422167-422168(-) m6A exon//intron       - chr20:422288-422289(-) m6A CDS//exon       26404942//27773535 chr20:422309-422310(-) m6A CDS//exon       26404942//27773535 chr20:422483-422484(-) m6A exon//intron       27773535 chr20:422649-422650(-) m6A CDS//exon       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	TBC1D20	Chromatin K562 cells     - Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus HCC cell line (HepG2)|K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART13-3p
Interactor2: TBC1D20

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//PITA//Targetscan
Support Database	RepTar//ViRBase//VmiReg

References:

PMID	22100165	Target region	3'UTR
Source	RepTar//ViRBase//VmiReg	Interactor1 expression	None
Tissue or cell line	BC-1 cells	Interactor2 expression	Downregulation
Description	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.