Detail Information

Basic Information:


  VIRBase ID:  

VHID00483458

  Virus:  

Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-11-5p:           RAB3IP:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-11-5p RAB3IP
miRBase
Accession/Entrez ID		 MIMAT0015213 117177
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - RABIN3//RABIN8

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR RAB3IP
chr12:70204835(+) A-I      intronic
chr12:70204919(+) A-I      intronic
chr12:70204895(+) A-I      intronic
chr12:70147338(+) A-I      intronic
chr12:70165061(+) A-I      intronic
chr12:70204945(+) A-I      intronic
chr12:70204971(+) A-I      intronic
chr12:70204956(+) A-I      intronic
chr12:70204898(+) A-I      intronic
chr12:70204946(+) A-I      intronic
chr12:70204904(+) A-I      intronic
chr12:70204837(+) A-I      intronic
chr12:70138283(+) A-I      intronic
chr12:70214478(+) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED RAB3IP
chr12:70204945(+) A-I intron -    22327324
chr12:70204946(+) A-I intron -    22327324
chr12:70204956(+) A-I intron -    22327324
chr12:70204971(+) A-I intron -    21960545
chr12:70204898(+) A-G intron -    22484847
chr12:70204904(+) A-G intron -    22484847
chr12:70204956(+) A-G intron -    22484847
chr12:70211838(+) A-C intron -    22484847
chr12:70211840(+) A-C intron -    22484847
chr12:70211843(+) C-T intron -    22484847
chr12:70212129(+) T-C intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase RAB3IP
chr12:70133461-70133462(+) m6A 5'UTR//intron       -
chr12:70133487-70133488(+) m6A 5'UTR//intron       -
chr12:70149225-70149226(+) m6A 3'UTR//CDS       -
chr12:70149249-70149250(+) m6A 3'UTR//CDS       -
chr12:70149275-70149276(+) m6A CDS//intron       -
chr12:70149287-70149288(+) m6A CDS//intron       -
chr12:70149373-70149374(+) m6A 3'UTR//CDS       -
chr12:70150261-70150262(+) m6A 3'UTR//CDS       22608085
chr12:70150424-70150425(+) m6A 3'UTR//CDS       27773535//22608085
chr12:70178558-70178559(+) m6A 3'UTR//5'UTR//CDS       24981863
chr12:70178573-70178574(+) m6A 3'UTR//5'UTR//CDS       24981863
chr12:70188269-70188270(+) m6A 3'UTR//CDS       24981863
chr12:70188956-70188957(+) m6A 3'UTR//CDS       24981863
chr12:70189016-70189017(+) m6A CDS       27773535
chr12:70209325-70209326(+) m6A 3'UTR//exon       24981863//22608085
chr12:70209377-70209378(+) m6A 3'UTR//exon       24981863//27773535//22608085
chr12:70209413-70209414(+) m6A 3'UTR//exon       27773535
chr12:70209477-70209478(+) m6A 3'UTR//exon       27773535
chr12:70210665-70210666(+) m6A 3'UTR//exon       25456834//24981863//22608085
chr12:70210673-70210674(+) m6A 3'UTR//exon       25456834//24981863//22608085
chr12:70210697-70210698(+) m6A 3'UTR//exon       24284625//25456834//24981863//22608085
chr12:70210736-70210737(+) m6A 3'UTR//exon       24284625//25456834//24981863//22608085
chr12:70210747-70210748(+) m6A 3'UTR//exon       24284625//25456834//24981863//22608085
chr12:70210754-70210755(+) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//22608085
chr12:70210847-70210848(+) m6A 3'UTR//exon       27773535
chr12:70210889-70210890(+) m6A 3'UTR//exon       27773535
chr12:70211424-70211425(+) m6A 3'UTR       24981863
chr12:70211478-70211479(+) m6A 3'UTR       24981863
chr12:70211930-70211931(+) m6A 3'UTR       -
chr12:70213304-70213305(+) m6A 3'UTR       25456834//24981863//22608085
chr12:70213416-70213417(+) m6A 3'UTR       24209618//25456834//24981863//22608085
chr12:70213497-70213498(+) m6A 3'UTR       25456834//24981863//22608085
chr12:70213505-70213506(+) m6A 3'UTR       25456834//24981863//22608085
chr12:70213558-70213559(+) m6A 3'UTR       25456834//24981863//22608085
chr12:70213584-70213585(+) m6A 3'UTR       25456834//24981863//22608085
chr12:70213617-70213618(+) m6A 3'UTR       22608085
chr12:70213676-70213677(+) m6A 3'UTR       22608085
chr12:70213715-70213716(+) m6A 3'UTR       24981863//22608085
chr12:70213733-70213734(+) m6A 3'UTR       24981863//22608085
chr12:70214111-70214112(+) m6A 3'UTR       24981863
chr12:70214186-70214187(+) m6A 3'UTR       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate RAB3IP
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Membrane HCC cell line (HepG2)     -

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-11-5p
Interactor2: RAB3IP

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.

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