Detail Information

Basic Information:


  VIRBase ID:  

VHID00414009

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART21-5p:           SOCS4:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART21-5p SOCS4
miRBase
Accession/Entrez ID		 MIMAT0010130 122809
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - SOCS7

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SOCS4
chr14:55507734(+) A-I      intronic
chr14:55507703(+) A-I      intronic
chr14:55507744(+) A-I      intronic
chr14:55507762(+) A-I      intronic
chr14:55501779(+) A-I      intronic
chr14:55507846(+) A-I      intronic
chr14:55507872(+) A-I      intronic
chr14:55501274(+) A-I      intronic
chr14:55507806(+) A-I      intronic
chr14:55503966(+) A-I      intronic
chr14:55506370(+) A-I      intronic
chr14:55500691(+) A-I      intronic
chr14:55499640(+) A-I      intronic
chr14:55501296(+) A-I      intronic
chr14:55501434(+) A-I      intronic
chr14:55501443(+) A-I      intronic
chr14:55501479(+) A-I      intronic
chr14:55501679(+) A-I      intronic
chr14:55500696(+) A-I      intronic
chr14:55501734(+) A-I      intronic
chr14:55503642(+) A-I      intronic
chr14:55501766(+) A-I      intronic
chr14:55501813(+) A-I      intronic
chr14:55503584(+) A-I      intronic
chr14:55503668(+) A-I      intronic
chr14:55503683(+) A-I      intronic
chr14:55503707(+) A-I      intronic
chr14:55503713(+) A-I      intronic
chr14:55503740(+) A-I      intronic
chr14:55503911(+) A-I      intronic
chr14:55503962(+) A-I      intronic
chr14:55504037(+) A-I      intronic
chr14:55504052(+) A-I      intronic
chr14:55504422(+) A-I      intronic
chr14:55507467(+) A-I      intronic
chr14:55504446(+) A-I      intronic
chr14:55506071(+) A-I      intronic
chr14:55507315(+) A-I      intronic
chr14:55507341(+) A-I      intronic
chr14:55507347(+) A-I      intronic
chr14:55507351(+) A-I      intronic
chr14:55507739(+) A-I      intronic
chr14:55501799(+) A-I      intronic
chr14:55503691(+) A-I      intronic
chr14:55501540(+) A-I      intronic
chr14:55503618(+) A-I      intronic
chr14:55500699(+) A-I      intronic
chr14:55503571(+) A-I      intronic
chr14:55507677(+) A-I      intronic
chr14:55508338(+) A-I      intronic
chr14:55501297(+) A-I      intronic
chr14:55504312(+) A-I      intronic
chr14:55507780(+) A-I      intronic
chr14:55503754(+) A-I      intronic
chr14:55504384(+) A-I      intronic
chr14:55508589(+) A-I      intronic
chr14:55500687(+) A-I      intronic
chr14:55504329(+) A-I      intronic
chr14:55503819(+) A-I      intronic
chr14:55508332(+) A-I      intronic
chr14:55507795(+) A-I      intronic
chr14:55500595(+) A-I      intronic
chr14:55501762(+) A-I      intronic
chr14:55503608(+) A-I      intronic
chr14:55503963(+) A-I      intronic
chr14:55506503(+) A-I      intronic
chr14:55501696(+) A-I      intronic
chr14:55499707(+) A-I      intronic
chr14:55501550(+) A-I      intronic
chr14:55506334(+) A-I      intronic
chr14:55508627(+) A-I      intronic
chr14:55501853(+) A-I      intronic
chr14:55504117(+) A-I      intronic
chr14:55501844(+) A-I      intronic
chr14:55503687(+) A-I      intronic
chr14:55501736(+) A-I      intronic
chr14:55501374(+) A-I      intronic
chr14:55501788(+) A-I      intronic
chr14:55506539(+) A-I      intronic
chr14:55501808(+) A-I      intronic
chr14:55507641(+) A-I      intronic
chr14:55503579(+) A-I      intronic
chr14:55501759(+) A-I      intronic
chr14:55501718(+) A-I      intronic
chr14:55507417(+) A-I      intronic
chr14:55501520(+) A-I      intronic
chr14:55499549(+) A-I      intronic
chr14:55500690(+) A-I      intronic
chr14:55513370(+) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SOCS4
chr14:55513370(+) A-I exon 3'UTR    19478186

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SOCS4
chr14:55493951-55493952(+) m6A 5'UTR       24284625//25456834//24981863//22608085
chr14:55493979-55493980(+) m6A 5'UTR       24284625//24209618//25456834//24981863//22608085
chr14:55494015-55494016(+) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//22608085
chr14:55494068-55494069(+) m6A 5'UTR//exon       24284625//24209618//24981863
chr14:55494126-55494127(+) m6A 5'UTR//exon       24284625
chr14:55498662-55498663(+) m6A 5'UTR//exon//intron       24981863
chr14:55509695-55509696(+) m6A 5'UTR       24981863//27773535//22608085
chr14:55509810-55509811(+) m6A CDS       24284625//24209618//24981863//27773535//22608085
chr14:55509909-55509910(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55509930-55509931(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55509949-55509950(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55509988-55509989(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55510034-55510035(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55510040-55510041(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085
chr14:55510136-55510137(+) m6A CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr14:55510252-55510253(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr14:55510263-55510264(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr14:55510315-55510316(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr14:55510405-55510406(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510492-55510493(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510536-55510537(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510588-55510589(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510667-55510668(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510693-55510694(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510708-55510709(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510766-55510767(+) m6A CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr14:55510844-55510845(+) m6A CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr14:55510855-55510856(+) m6A CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr14:55510880-55510881(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr14:55510908-55510909(+) m6A CDS       24284625//24209618//24981863//22575960//22608085
chr14:55510941-55510942(+) m6A CDS       24284625//24209618//24981863//22575960//22608085
chr14:55511069-55511070(+) m6A CDS       24209618//24981863//22608085
chr14:55511850-55511851(+) Y 3'UTR       26075521
chr14:55513780-55513781(+) m6A 3'UTR       24209618//24981863
chr14:55514724-55514725(+) Y 3'UTR       26075521
chr14:55515189-55515190(+) Y 3'UTR       26075521
chr14:55515397-55515398(+) Y 3'UTR       26075521
chr14:55515677-55515678(+) m6A 3'UTR       24981863//22608085
chr14:55515687-55515688(+) m6A 3'UTR       24981863//22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SOCS4
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART21-5p
Interactor2: SOCS4

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 None
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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