Detail Information

Basic Information:


  VIRBase ID:  

VHID00482936

  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:           TM9SF3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-11-5p TM9SF3
miRBase
Accession/Entrez ID		 MIMAT0015213 56889
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - EP70-P-iso//SMBP

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TM9SF3
chr10:98300788(-) A-I      intronic
chr10:98300785(-) A-I      intronic
chr10:98300794(-) A-I      intronic
chr10:98300793(-) A-I      intronic
chr10:98329677(-) A-I      intronic
chr10:98323987(-) A-I      intronic
chr10:98340218(-) A-I      intronic
chr10:98330623(-) A-I      intronic
chr10:98322887(-) A-I      intronic
chr10:98322956(-) A-I      intronic
chr10:98340083(-) A-I      intronic
chr10:98330768(-) A-I      intronic
chr10:98340207(-) A-I      intronic
chr10:98338622(-) A-I      intronic
chr10:98338665(-) A-I      intronic
chr10:98338671(-) A-I      intronic
chr10:98323927(-) A-I      intronic
chr10:98344403(-) A-I      intronic
chr10:98322961(-) A-I      intronic
chr10:98330751(-) A-I      intronic
chr10:98340204(-) A-I      intronic
chr10:98338715(-) A-I      intronic
chr10:98323981(-) A-I      intronic
chr10:98296651(-) A-I      intronic
chr10:98300777(-) A-I      intronic
chr10:98340290(-) A-I      intronic
chr10:98340194(-) A-I      intronic
chr10:98338751(-) A-I      intronic
chr10:98340228(-) A-I      intronic
chr10:98340226(-) A-I      intronic
chr10:98323997(-) A-I      intronic
chr10:98338788(-) A-I      intronic
chr10:98338661(-) A-I      intronic
chr10:98297494(-) A-I      intronic
chr10:98340161(-) A-I      intronic
chr10:98328826(-) A-I      intronic
chr10:98329689(-) A-I      intronic
chr10:98338676(-) A-I      intronic
chr10:98330635(-) A-I      intronic
chr10:98338777(-) A-I      intronic
chr10:98338722(-) A-I      intronic
chr10:98329626(-) A-I      intronic
chr10:98340056(-) A-I      intronic
chr10:98297506(-) A-I      intronic
chr10:98338667(-) A-I      intronic
chr10:98297473(-) A-I      intronic
chr10:98329546(-) A-I      intronic
chr10:98332390(-) A-I      intronic
chr10:98323937(-) A-I      intronic
chr10:98338653(-) A-I      intronic
chr10:98323271(-) A-I      intronic
chr10:98340187(-) A-I      intronic
chr10:98322971(-) A-I      intronic
chr10:98299011(-) A-I      intronic
chr10:98298985(-) A-I      intronic
chr10:98328845(-) A-I      intronic
chr10:98342664(-) A-I      intronic
chr10:98340287(-) A-I      intronic
chr10:98344409(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED TM9SF3
chr10:98320668(-) A-I intron -    22327324
chr10:98296691(-) A-I intron -    21960545
chr10:98296716(-) A-I intron -    21960545
chr10:98322971(-) A-I intron -    21960545
chr10:98323937(-) A-I intron -    21960545
chr10:98323997(-) A-I intron -    21960545
chr10:98338621(-) A-I intron -    21960545
chr10:98338712(-) A-I intron -    21960545
chr10:98338722(-) A-I intron -    21960545
chr10:98338777(-) A-I intron -    21960545
chr10:98322971(-) A-G intron -    22484847
chr10:98340161(-) A-G intron -    22484847
chr10:98343775(-) C-T intron -    22484847
chr10:98281484(-) T-C exon 3'UTR    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TM9SF3
chr10:98278050-98278051(-) m6A 3'UTR       24981863//22608085
chr10:98278075-98278076(-) m6A 3'UTR       24981863//22608085
chr10:98278106-98278107(-) m6A 3'UTR       24981863//22608085
chr10:98278149-98278150(-) m6A 3'UTR       22608085
chr10:98278157-98278158(-) m6A 3'UTR       22608085
chr10:98280601-98280602(-) m6A 3'UTR       -
chr10:98280623-98280624(-) m6A 3'UTR       -
chr10:98280646-98280647(-) m6A 3'UTR       -
chr10:98281033-98281034(-) Cm 3'UTR       -
chr10:98281112-98281113(-) m6A 3'UTR       26404942
chr10:98281319-98281320(-) m6A 3'UTR       26404942
chr10:98281367-98281368(-) m6A 3'UTR       26404942
chr10:98281394-98281395(-) m6A 3'UTR       26404942
chr10:98281529-98281530(-) m6A 3'UTR       26404942
chr10:98281659-98281660(-) m6A 3'UTR       26404942
chr10:98281708-98281709(-) m6A 3'UTR       24284625//26404942
chr10:98281731-98281732(-) m6A 3'UTR       24284625//22608085
chr10:98281755-98281756(-) m6A 3'UTR       24284625//22608085
chr10:98281951-98281952(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27371828//22575960//22608085
chr10:98281966-98281967(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27371828//22575960//22608085
chr10:98281999-98282000(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27371828//22575960//22608085
chr10:98282006-98282007(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27371828//22575960//22608085
chr10:98282016-98282017(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27371828//22575960//22608085
chr10:98282066-98282067(-) m6A CDS//exon       24284625//24981863//26404942//27371828//22608085
chr10:98321836-98321837(-) m6A CDS//exon       26404942
chr10:98321847-98321848(-) m6A CDS//exon       26404942
chr10:98336381-98336382(-) m6A exon//intron       26404942
chr10:98336453-98336454(-) m6A CDS//exon       26404942//27773535
chr10:98336519-98336520(-) m6A CDS//exon       24209618//26404942//27773535
chr10:98337276-98337277(-) m6A exon//intron       24209618
chr10:98346496-98346497(-) m6A CDS//exon//intron       24209618//27371828//27773536
chr10:98346516-98346517(-) m6A CDS//intron       24209618//27371828//27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate TM9SF3
Chromatin K562 cells     -
Cytosol K562 cells     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-11-5p
Interactor2: TM9SF3

Evidence Support:


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

References:


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