Detail Information

Basic Information:


  VIRBase ID:  

VHID00479605

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.5711

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-10a-5p:           TFIP11:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-10a-5p TFIP11
miRBase
Accession/Entrez ID		 MIMAT0015212 24144
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - bK445C9.6//NTR1//Spp382//STIP//STIP-1//TIP39

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TFIP11
chr22:26900991(-) A-I      intronic
chr22:26901805(-) A-I      intronic
chr22:26890995(-) A-I      intronic
chr22:26891109(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED TFIP11
chr22:26891512(-) A-I intron -    22327324
chr22:26890997(-) T-C intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TFIP11
chr22:26887209-26887210(-) m6A 3'UTR       27773535
chr22:26887244-26887245(-) m6A 3'UTR       27773535
chr22:26887260-26887261(-) m6A 3'UTR       27773535
chr22:26887401-26887402(-) m6A 3'UTR       24284625//24209618//24981863//22575960//22608085
chr22:26887455-26887456(-) m6A 3'UTR       24284625//24209618//24981863//22575960//22608085
chr22:26887501-26887502(-) m6A 3'UTR       24284625//24209618//24981863//22575960//22608085
chr22:26887509-26887510(-) m6A 3'UTR       24284625//24209618//24981863//22575960//22608085
chr22:26887554-26887555(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr22:26887758-26887759(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr22:26887763-26887764(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr22:26887824-26887825(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr22:26887917-26887918(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr22:26887949-26887950(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr22:26887960-26887961(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr22:26887977-26887978(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr22:26888005-26888006(-) Gm CDS//exon       -
chr22:26888157-26888158(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr22:26888168-26888169(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr22:26888177-26888178(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr22:26888225-26888226(-) m6A CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//27773536//22575960//22608085
chr22:26888267-26888268(-) m6A CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr22:26888303-26888304(-) m6A CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085
chr22:26890127-26890128(-) m6A CDS//exon       24209618//27773535//22575960
chr22:26890157-26890158(-) m6A CDS//exon       24209618//27773535
chr22:26890187-26890188(-) m6A CDS//exon       24209618
chr22:26890342-26890343(-) m6A exon//intron       24284625//24209618//24981863//22608085
chr22:26890347-26890348(-) m6A exon//intron       24284625//24209618//24981863//22608085
chr22:26890359-26890360(-) m6A exon//intron       24284625//24209618//24981863//22608085
chr22:26890409-26890410(-) m6A exon//intron       24284625//24209618//24981863//22608085
chr22:26890495-26890496(-) m6A exon//intron       24284625//24209618//24981863//22608085
chr22:26892055-26892056(-) m6A CDS       24284625
chr22:26892256-26892257(-) m6A CDS       24284625//27773535
chr22:26892268-26892269(-) m6A CDS       27773535
chr22:26892274-26892275(-) m6A CDS       27773535
chr22:26895133-26895134(-) m6A CDS//exon       27773536
chr22:26895172-26895173(-) m6A CDS//exon       27371828//27773536
chr22:26895182-26895183(-) m6A CDS//exon       27371828//27773536
chr22:26895283-26895284(-) m6A CDS//exon       27371828//27773536
chr22:26895307-26895308(-) m6A CDS//exon       27371828//27773536
chr22:26895358-26895359(-) m6A CDS       27371828//27773536
chr22:26895589-26895590(-) m6A CDS//exon       27371828
chr22:26897880-26897881(-) m6A CDS//exon       27371828
chr22:26897942-26897943(-) m6A CDS//exon       27371828//27773536
chr22:26897983-26897984(-) m6A CDS//exon       27371828//27773536
chr22:26899668-26899669(-) m6A CDS//exon       27371828//27773536
chr22:26899702-26899703(-) Y CDS//exon       26075521
chr22:26901879-26901880(-) m6A exon//intron       27371828
chr22:26901892-26901893(-) m6A exon//intron       27371828
chr22:26902329-26902330(-) m6A CDS//exon       27773535//27371828
chr22:26902347-26902348(-) m6A CDS//exon       27773535//27371828
chr22:26902366-26902367(-) m6A CDS//exon       27773535//27371828
chr22:26902382-26902383(-) m6A CDS//exon       27773535//27371828
chr22:26902758-26902759(-) m6A CDS//exon       24209618
chr22:26902794-26902795(-) m6A CDS//exon       24209618//27371828//27773536
chr22:26906065-26906066(-) m6A CDS//exon       24284625//24209618//27773535//27371828//27773536
chr22:26906105-26906106(-) m6A CDS//exon       24284625//24209618//27773535//27371828
chr22:26906170-26906171(-) m6A CDS//exon       24284625
chr22:26908126-26908127(-) m6A 5'UTR//exon       27371828
chr22:26908140-26908141(-) m6A 5'UTR//exon       27371828
chr22:26908146-26908147(-) m6A 5'UTR//intron       27371828
chr22:26908166-26908167(-) m6A 5'UTR//intron       27371828

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate TFIP11
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)     -
Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-10a-5p
Interactor2: TFIP11

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence PARalyzer
Support Database ViRBase

References:


PMID 22100165 Target region 3'UTR
Source ViRBase Interactor1 expression None
Tissue or cell line BC-3 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 S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.

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