Detail Information

Basic Information:


  VIRBase ID:  

VHID00469793

  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-K12-3-5p:           PARD6B:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-3-5p PARD6B
miRBase
Accession/Entrez ID		 MIMAT0002193 84612
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - PAR6B

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR PARD6B
chr20:49357637(+) A-I      intronic
chr20:49353437(+) A-I      intronic
chr20:49353395(+) A-I      intronic
chr20:49351511(+) A-I      intronic
chr20:49351320(+) A-I      intronic
chr20:49355823(+) A-I      intronic
chr20:49351024(+) A-I      intronic
chr20:49355822(+) A-I      intronic
chr20:49351022(+) A-I      intronic
chr20:49351425(+) A-I      intronic
chr20:49372363(+) A-I      intronic
chr20:49365181(+) A-I      intronic
chr20:49364638(+) A-I      intronic
chr20:49364614(+) A-I      intronic
chr20:49362305(+) A-I      intronic
chr20:49360305(+) A-I      intronic
chr20:49360170(+) A-I      intronic
chr20:49358717(+) A-I      intronic
chr20:49358660(+) A-I      intronic
chr20:49358641(+) A-I      intronic
chr20:49358629(+) A-I      intronic
chr20:49355864(+) A-I      intronic
chr20:49351454(+) A-I      intronic
chr20:49355837(+) A-I      intronic
chr20:49372439(+) A-I      intronic
chr20:49372444(+) A-I      intronic
chr20:49360315(+) A-I      intronic
chr20:49355831(+) A-I      intronic
chr20:49355819(+) A-I      intronic
chr20:49355807(+) A-I      intronic
chr20:49353418(+) A-I      intronic
chr20:49353364(+) A-I      intronic
chr20:49353312(+) A-I      intronic
chr20:49353299(+) A-I      intronic
chr20:49353291(+) A-I      intronic
chr20:49351632(+) A-I      intronic
chr20:49351608(+) A-I      intronic
chr20:49351607(+) A-I      intronic
chr20:49372434(+) A-I      intronic
chr20:49360214(+) A-I      intronic
chr20:49351293(+) A-I      intronic
chr20:49353496(+) A-I      intronic
chr20:49360217(+) A-I      intronic
chr20:49351556(+) A-I      intronic
chr20:49370830(+) A-I      intronic
chr20:49350945(+) A-I      intronic
chr20:49351567(+) A-I      intronic
chr20:49353487(+) A-I      intronic
chr20:49360237(+) A-I      intronic
chr20:49357772(+) A-I      intronic
chr20:49350937(+) A-I      intronic
chr20:49365176(+) A-I      intronic
chr20:49365786(+) A-I      intronic
chr20:49349951(+) A-I      intronic
chr20:49368157(+) A-I      3'UTR
chr20:49364766(+) A-I      intronic
chr20:49365603(+) A-I      intronic
chr20:49360781(+) A-I      intronic
chr20:49362318(+) A-I      intronic
chr20:49365356(+) A-I      intronic
chr20:49353308(+) A-I      intronic
chr20:49365702(+) A-I      intronic
chr20:49365291(+) A-I      intronic
chr20:49365349(+) A-I      intronic
chr20:49351501(+) A-I      intronic
chr20:49362176(+) A-I      intronic
chr20:49349776(+) A-I      intronic
chr20:49361809(+) A-I      intronic
chr20:49360171(+) A-I      intronic
chr20:49360791(+) A-I      intronic
chr20:49365721(+) A-I      intronic
chr20:49355374(+) A-I      intronic
chr20:49358764(+) A-I      intronic
chr20:49351566(+) A-I      intronic
chr20:49372457(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED PARD6B
chr20:49349747(+) A-I intron -    21960545
chr20:49351017(+) A-I intron -    21960545
chr20:49351022(+) A-I intron -    21960545
chr20:49351241(+) A-I intron -    21960545
chr20:49351293(+) A-I intron -    21960545
chr20:49351567(+) A-I intron -    21960545
chr20:49355420(+) A-I intron -    21960545
chr20:49362282(+) A-I intron -    21960545
chr20:49362305(+) A-I intron -    21960545
chr20:49362306(+) A-I intron -    21960545
chr20:49365291(+) A-I intron -    21960545
chr20:49365349(+) A-G intron -    22484847
chr20:49365689(+) G-C intron -    22484847
chr20:49365702(+) A-G intron -    22484847
chr20:49365721(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase PARD6B
chr20:49348327-49348328(+) m6A CDS       -
chr20:49354434-49354435(+) m6A CDS       22608085
chr20:49354517-49354518(+) m6A CDS       24981863//22608085
chr20:49354529-49354530(+) m6A CDS       24981863//22608085
chr20:49366204-49366205(+) m6A CDS//intron       24284625//24981863//22608085
chr20:49366225-49366226(+) m6A CDS//intron       24284625//24981863//22608085
chr20:49366318-49366319(+) m6A CDS//intron       24284625//24981863//22608085
chr20:49366325-49366326(+) m6A CDS//intron       24284625//24981863//22608085
chr20:49366406-49366407(+) m6A CDS//intron       24284625//24981863//27773535//22608085
chr20:49366526-49366527(+) m6A CDS//intron       24284625//24981863//27773535//22575960//22608085
chr20:49366603-49366604(+) m6A CDS//intron       24284625//24981863//27773535//22575960//22608085
chr20:49366646-49366647(+) m6A CDS//intron       24284625//24981863//27773535//22575960//22608085
chr20:49366654-49366655(+) m6A CDS//intron       24284625//24981863//27773535//22575960//22608085
chr20:49366678-49366679(+) m6A CDS//intron       24284625//24981863//27773535//22575960//22608085
chr20:49366686-49366687(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366748-49366749(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366774-49366775(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366804-49366805(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366895-49366896(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366954-49366955(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366968-49366969(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49366988-49366989(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49367007-49367008(+) m6A CDS//intron       24284625//25456834//24981863//27773535//22575960//22608085
chr20:49367026-49367027(+) m6A 3'UTR//intron       24284625//24981863//27773535//22575960//22608085
chr20:49367066-49367067(+) m6A 3'UTR//intron       24284625//24981863//27773535//22575960//22608085
chr20:49367192-49367193(+) m6A 3'UTR//intron       24981863//27773535//22608085
chr20:49367226-49367227(+) m6A 3'UTR//intron       24981863//22608085
chr20:49367307-49367308(+) m6A 3'UTR//intron       22608085
chr20:49367320-49367321(+) m6A 3'UTR//intron       22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate kshv-miR-K12-3-5p
Exosome B cell line (Raji)|Primary dendritic cells|T cell line (J77)     21505438
Exosome KSHV-infected lymphoma cell lines (BCBL-1|TY-1)     27611973
Exosome K562 cells     24460325
PARD6B
Chromatin K562 cells     -
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-3-5p
Interactor2: PARD6B

Evidence Support:


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

References:


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