Detail Information

Basic Information:


  VIRBase ID:  

VHID00484200

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.5908

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-1-3p:           TSC22D3:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-1-3p TSC22D3
miRBase
Accession/Entrez ID		 MIMAT0015214 1831
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - DIP//DSIPI//GILZ//TSC-22R

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TSC22D3
chrX:107006255(-) A-I      intronic
chrX:107006251(-) A-I      intronic
chrX:107001136(-) A-I      intronic
chrX:107006195(-) A-I      intronic
chrX:107001209(-) A-I      intronic
chrX:107002207(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TSC22D3
chrX:106957269-106957270(-) m6A 3'UTR       24284625//24981863//27773535//22608085
chrX:106957375-106957376(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chrX:106957577-106957578(-) m6A 3'UTR       24284625//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chrX:106957608-106957609(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chrX:106957650-106957651(-) m6A 3'UTR       24284625//24209618//24981863//28052920//26404942//27773535//22575960//22608085
chrX:106957713-106957714(-) m6A 3'UTR       24284625//24981863//28052920//27773535//22575960//22608085
chrX:106957858-106957859(-) m6A CDS       24284625//24981863//27773535//27371828//27773536
chrX:106957872-106957873(-) m6A CDS       24284625//24981863//27773535//27371828//27773536
chrX:106957893-106957894(-) m6A CDS       24284625//24981863//28052920//27773535//27371828//27773536
chrX:106957918-106957919(-) Cm CDS       -
chrX:106959027-106959028(-) m6A CDS//intron       24981863//28052920//27773535//27371828//27773536
chrX:106959137-106959138(-) m6A 5'UTR//CDS       24981863
chrX:106959150-106959151(-) m6A 5'UTR//CDS       24981863
chrX:106959220-106959221(-) m6A 5'UTR//intron       24981863
chrX:106959255-106959256(-) m6A 5'UTR//intron       25456834//24981863//27773536
chrX:106959312-106959313(-) m6A 5'UTR//intron       25456834//24981863//27371828//27773536//22608085
chrX:106959326-106959327(-) m6A 5'UTR//intron       25456834//24981863//27371828//27773536//22608085
chrX:106959407-106959408(-) m6A 5'UTR//intron       27773536//22608085
chrX:106959434-106959435(-) m6A 5'UTR//intron       27773536
chrX:106959505-106959506(-) m6A 5'UTR//intron       27773536
chrX:106959528-106959529(-) m6A 5'UTR//intron       27773536
chrX:106959643-106959644(-) m6A 5'UTR//intron       25456834//27773536
chrX:106959648-106959649(-) m6A 5'UTR//intron       25456834//27773536
chrX:106959700-106959701(-) m6A 5'UTR//intron       27773536
chrX:106960019-106960020(-) m6A CDS//intron       24981863//28052920//27371828//27773536
chrX:106960036-106960037(-) m6A CDS//intron       24981863//28052920//27371828//27773536
chrX:106960071-106960072(-) m6A 5'UTR//intron       24981863//27371828//27773536
chrX:106960146-106960147(-) m6A 5'UTR//intron       24981863//27371828//27773536
chrX:106960278-106960279(-) m6A 5'UTR//intron       27371828//27773536
chrX:107018473-107018474(-) m6A 5'UTR//CDS       27773536//22608085
chrX:107018539-107018540(-) m6A CDS//intron       27371828//27773536//22608085
chrX:107018584-107018585(-) m6A CDS//intron       27371828//27773536//22608085
chrX:107018970-107018971(-) m6A 5'UTR//intron       24284625//27773536
chrX:107018977-107018978(-) m6A 5'UTR//intron       27773536
chrX:107019098-107019099(-) m6A 5'UTR//intron       27773536
chrX:107019184-107019185(-) m6A 5'UTR//intron       27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate TSC22D3
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleus HeLa-S3 cells     -

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-1-3p
Interactor2: TSC22D3

Evidence Support:


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

References:


PMID 22100165 Target region 3'UTR
Source VIRmiRNA//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells//BC-3 cells//BCBL-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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