Detail Information

Basic Information:


  VIRBase ID:  

VHID00313773

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART6-5p:           SOCS5:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART6-5p SOCS5
miRBase
Accession/Entrez ID		 MIMAT0003414 9655
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - CIS6//Cish5//CISH6//SOCS-5

RNA Editing:


Resource Symbol Editing Position
Lncediting SOCS5
    chr2: 47005147
    chr2: 47005111
    chr2: 47005091
    chr2: 47005101
    chr2: 47005102
    chr2: 47004960
    chr2: 47005068
Resource Symbol Editing Position Change Genetic Region
RADAR SOCS5
chr2:46957624(+) A-I      intronic
chr2:46957578(+) A-I      intronic
chr2:46957619(+) A-I      intronic
chr2:46957580(+) A-I      intronic
chr2:46960629(+) A-I      intronic
chr2:46960627(+) A-I      intronic
chr2:46957628(+) A-I      intronic
chr2:46957575(+) A-I      intronic
chr2:46942431(+) A-I      intronic
chr2:46969844(+) A-I      intronic
chr2:46969830(+) A-I      intronic
chr2:46940352(+) A-I      intronic
chr2:46939612(+) A-I      intronic
chr2:46973696(+) A-I      intronic
chr2:46973716(+) A-I      intronic
chr2:46940415(+) A-I      intronic
chr2:46960591(+) A-I      intronic
chr2:46957596(+) A-I      intronic
chr2:46960721(+) A-I      intronic
chr2:46957466(+) A-I      intronic
chr2:46957462(+) A-I      intronic
chr2:46955812(+) A-I      intronic
chr2:46942532(+) A-I      intronic
chr2:46943827(+) A-I      intronic
chr2:46943818(+) A-I      intronic
chr2:46943746(+) A-I      intronic
chr2:46973643(+) A-I      intronic
chr2:46973669(+) A-I      intronic
chr2:46955796(+) A-I      intronic
chr2:46955794(+) A-I      intronic
chr2:46969905(+) A-I      intronic
chr2:46960637(+) A-I      intronic
chr2:46969898(+) A-I      intronic
chr2:46955722(+) A-I      intronic
chr2:46984885(+) A-I      intronic
chr2:46968517(+) A-I      intronic
chr2:46975578(+) A-I      intronic
chr2:46968459(+) A-I      intronic
chr2:46984859(+) A-I      intronic
chr2:46943832(+) A-I      intronic
chr2:46939583(+) A-I      intronic
chr2:46940313(+) A-I      intronic
chr2:46943850(+) A-I      intronic
chr2:46957688(+) A-I      intronic
chr2:46940311(+) A-I      intronic
chr2:46971326(+) A-I      intronic
chr2:46940258(+) A-I      intronic
chr2:46942399(+) A-I      intronic
chr2:46955943(+) A-I      intronic
chr2:46960615(+) A-I      intronic
chr2:46943734(+) A-I      intronic
chr2:46943807(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SOCS5
chr2:46939583(+) A-G intron -    22484847
chr2:46940311(+) A-G intron -    22484847
chr2:46940313(+) A-G intron -    22484847
chr2:46971289(+) T-C intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SOCS5
chr2:46926362-46926363(+) m1A 5'UTR//intron       26863196//26863410
chr2:46926501-46926502(+) m6A 5'UTR//intron       24209618
chr2:46985760-46985761(+) m6A CDS       24284625//24209618//24981863//22608085
chr2:46985766-46985767(+) m6A CDS       24284625//24209618//24981863//22608085
chr2:46985799-46985800(+) m6A CDS       24284625//24209618//24981863//27773535//22608085
chr2:46985814-46985815(+) m6A CDS       24284625//24209618//24981863//27773535//22608085
chr2:46985984-46985985(+) m6A CDS       24284625//25456834//24981863//22608085
chr2:46985989-46985990(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986043-46986044(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986062-46986063(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986101-46986102(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986112-46986113(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986162-46986163(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986179-46986180(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986202-46986203(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986245-46986246(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986370-46986371(+) m6A CDS       24284625//24981863//22608085
chr2:46986562-46986563(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr2:46986568-46986569(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr2:46986606-46986607(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr2:46986705-46986706(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986727-46986728(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986828-46986829(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986862-46986863(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986888-46986889(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46986903-46986904(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr2:46987030-46987031(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr2:46987039-46987040(+) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr2:46987075-46987076(+) m6A CDS       24284625//24209618//24981863//22575960//22608085
chr2:46987103-46987104(+) m6A CDS       24284625//24209618//24981863//22575960//22608085
chr2:46987228-46987229(+) m6A CDS       24284625//24981863//22608085
chr2:46987261-46987262(+) m6A CDS       24981863
chr2:46989432-46989433(+) m6A 3'UTR       24981863
chr2:46989476-46989477(+) m6A 3'UTR       24981863
chr2:46989513-46989514(+) m6A 3'UTR       24981863
chr2:46989520-46989521(+) m6A 3'UTR       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SOCS5
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol HCC cell line (HepG2)     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells     -

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART6-5p
Interactor2: SOCS5

Evidence Support:


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

References:


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

Starting a new search, please wait ...