Detail Information

Basic Information:


  VIRBase ID:  

VHID00397398

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART9-5p:           SS18:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART9-5p SS18
miRBase
Accession/Entrez ID		 MIMAT0004816 6760
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - SSXT//SYT

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SS18
chr18:23658716(-) A-I      intronic
chr18:23658788(-) A-I      intronic
chr18:23635219(-) A-I      intronic
chr18:23635312(-) A-I      intronic
chr18:23635319(-) A-I      intronic
chr18:23635331(-) A-I      intronic
chr18:23635348(-) A-I      intronic
chr18:23635349(-) A-I      intronic
chr18:23643217(-) A-I      intronic
chr18:23604532(-) A-I      intronic
chr18:23604536(-) A-I      intronic
chr18:23604554(-) A-I      intronic
chr18:23621325(-) A-I      intronic
chr18:23659722(-) A-I      intronic
chr18:23659834(-) A-I      intronic
chr18:23661343(-) A-I      intronic
chr18:23661358(-) A-I      intronic
chr18:23661373(-) A-I      intronic
chr18:23661411(-) A-I      intronic
chr18:23661811(-) A-I      intronic
chr18:23661940(-) A-I      intronic
chr18:23661973(-) A-I      intronic
chr18:23629573(-) A-I      intronic
chr18:23629613(-) A-I      intronic
chr18:23629707(-) A-I      intronic
chr18:23634793(-) A-I      intronic
chr18:23634801(-) A-I      intronic
chr18:23634810(-) A-I      intronic
chr18:23634816(-) A-I      intronic
chr18:23634820(-) A-I      intronic
chr18:23634843(-) A-I      intronic
chr18:23634885(-) A-I      intronic
chr18:23634903(-) A-I      intronic
chr18:23634907(-) A-I      intronic
chr18:23634910(-) A-I      intronic
chr18:23634922(-) A-I      intronic
chr18:23634930(-) A-I      intronic
chr18:23634935(-) A-I      intronic
chr18:23643449(-) A-I      intronic
chr18:23634967(-) A-I      intronic
chr18:23635187(-) A-I      intronic
chr18:23635291(-) A-I      intronic
chr18:23661787(-) A-I      intronic
chr18:23661927(-) A-I      intronic
chr18:23635307(-) A-I      intronic
chr18:23635267(-) A-I      intronic
chr18:23634778(-) A-I      intronic
chr18:23634882(-) A-I      intronic
chr18:23604448(-) A-I      intronic
chr18:23630007(-) A-I      intronic
chr18:23662014(-) A-I      intronic
chr18:23630187(-) A-I      intronic
chr18:23634873(-) A-I      intronic
chr18:23661427(-) A-I      intronic
chr18:23659723(-) A-I      intronic
chr18:23635426(-) A-I      intronic
chr18:23635265(-) A-I      intronic
chr18:23626029(-) A-I      intronic
chr18:23661419(-) A-I      intronic
chr18:23661328(-) A-I      intronic
chr18:23635282(-) A-I      intronic
chr18:23629626(-) A-I      intronic
chr18:23661856(-) A-I      intronic
chr18:23635268(-) A-I      intronic
chr18:23659716(-) A-I      intronic
chr18:23630077(-) A-I      intronic
chr18:23634940(-) A-I      intronic
chr18:23661850(-) A-I      intronic
chr18:23659795(-) A-I      intronic
chr18:23658807(-) A-I      intronic
chr18:23661777(-) A-I      intronic
chr18:23661323(-) A-I      intronic
chr18:23635283(-) A-I      intronic
chr18:23634881(-) A-I      intronic
chr18:23659715(-) A-I      intronic
chr18:23661805(-) A-I      intronic
chr18:23661331(-) A-I      intronic
chr18:23635374(-) A-I      intronic
chr18:23659769(-) A-I      intronic
chr18:23661449(-) A-I      intronic
chr18:23661939(-) A-I      intronic
chr18:23635368(-) A-I      intronic
chr18:23661907(-) A-I      intronic
chr18:23634842(-) A-I      intronic
chr18:23661913(-) A-I      intronic
chr18:23661842(-) A-I      intronic
chr18:23659630(-) A-I      intronic
chr18:23662009(-) A-I      intronic
chr18:23661900(-) A-I      intronic
chr18:23661349(-) A-I      intronic
chr18:23635309(-) A-I      intronic
chr18:23659803(-) A-I      intronic
chr18:23634868(-) A-I      intronic
chr18:23658751(-) A-I      intronic
chr18:23629507(-) A-I      intronic
chr18:23659580(-) A-I      intronic
chr18:23661286(-) A-I      intronic
chr18:23629729(-) A-I      intronic
chr18:23634876(-) A-I      intronic
chr18:23658849(-) A-I      intronic
chr18:23659675(-) A-I      intronic
chr18:23659717(-) A-I      intronic
chr18:23635228(-) A-I      intronic
chr18:23661978(-) A-I      intronic
chr18:23661293(-) A-I      intronic
chr18:23661337(-) A-I      intronic
chr18:23658739(-) A-I      intronic
chr18:23661322(-) A-I      intronic
chr18:23661292(-) A-I      intronic
chr18:23659711(-) A-I      intronic
chr18:23661332(-) A-I      intronic
chr18:23661413(-) A-I      intronic
chr18:23629639(-) A-I      intronic
chr18:23635384(-) A-I      intronic
chr18:23635873(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SS18
chr18:23661900(-) A-I intron -    22327324
chr18:23661322(-) A-I intron -    21960545
chr18:23661850(-) A-I intron -    21960545
chr18:23658658(-) A-G intron -    22484847
chr18:23658739(-) A-G intron -    22484847
chr18:23659716(-) A-G intron -    22484847
chr18:23659717(-) A-G intron -    22484847
chr18:23659769(-) A-G intron -    22484847
chr18:23661196(-) A-G intron -    22484847
chr18:23661266(-) A-G intron -    22484847
chr18:23661292(-) A-G intron -    22484847
chr18:23661322(-) A-G intron -    22484847
chr18:23661323(-) A-G intron -    22484847
chr18:23661337(-) A-G intron -    22484847
chr18:23661850(-) A-G intron -    22484847
chr18:23661900(-) A-G intron -    22484847
chr18:23661939(-) A-G intron -    22484847
chr18:23661978(-) A-G intron -    22484847
chr18:23662009(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SS18
chr18:23597744-23597745(-) m6A 3'UTR       27773535
chr18:23597810-23597811(-) m6A 3'UTR       24209618//24981863//27773535
chr18:23597816-23597817(-) m6A 3'UTR       24209618//24981863//27773535
chr18:23597845-23597846(-) m6A 3'UTR       24209618//24981863//27773535//22608085
chr18:23598004-23598005(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr18:23598018-23598019(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr18:23598028-23598029(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr18:23598044-23598045(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr18:23598086-23598087(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr18:23598204-23598205(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr18:23598252-23598253(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr18:23598341-23598342(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//28052920//27773535//22608085
chr18:23603583-23603584(-) m6A exon//intron       24284625//24209618//24981863//28052920//27773535//22608085
chr18:23612404-23612405(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//22608085
chr18:23612419-23612420(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//22608085
chr18:23612446-23612447(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//22608085
chr18:23614984-23614985(-) m6A 3'UTR//CDS//exon       24284625//24209618//27773535
chr18:23615050-23615051(-) m6A 3'UTR//CDS//exon       24284625//24209618//27773535
chr18:23615130-23615131(-) m6A exon//intron       27773535
chr18:23618580-23618581(-) m6A 3'UTR//CDS       27773535
chr18:23618592-23618593(-) m6A 3'UTR//CDS       27773535
chr18:23619265-23619266(-) m6A 3'UTR//CDS       27773535
chr18:23619283-23619284(-) m6A 3'UTR//CDS       27773535
chr18:23619346-23619347(-) m6A 3'UTR//CDS       27773535
chr18:23619361-23619362(-) m6A 3'UTR//CDS       27773535
chr18:23632592-23632593(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632615-23632616(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632628-23632629(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632642-23632643(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632754-23632755(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632777-23632778(-) m6A 3'UTR//CDS//exon       27773535
chr18:23632783-23632784(-) m6A 3'UTR//CDS//exon       27773535
chr18:23637575-23637576(-) m6A 3'UTR//CDS//exon       27773535
chr18:23648278-23648279(-) m6A exon//intron       27773535
chr18:23648496-23648497(-) m6A 3'UTR//exon//intron       27773535
chr18:23670560-23670561(-) m6A 5'UTR//exon//intron       24981863
chr18:23670709-23670710(-) m6A 5'UTR//intron       27773536
chr18:23671132-23671133(-) m6A 5'UTR       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SS18
Chromatin K562 cells     -
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol HCC cell line (HepG2)|K562 cells     -
Exosome Blood     -
Insoluble cytoplasm HCC cell line (HepG2)     -
Membrane HCC cell line (HepG2)|K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART9-5p
Interactor2: SS18

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence PARalyzer
Support Database ViRBase//VIRmiRNA

References:


PMID 22100165 Target region 3'UTR
Source ViRBase//VIRmiRNA 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.

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