Basic Information:

  VIRBase ID:  

VHID00427157

  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-K12-10b:  MIMAT0002180          DEF8:  NM_001242822     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-10b	DEF8
miRBase Accession/Entrez ID	MIMAT0002180	54849
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	DEF8	chr16:90017133(+) A-I      intronic chr16:90017210(+) A-I      intronic chr16:90017234(+) A-I      intronic chr16:90026901(+) A-I      intronic chr16:90026898(+) A-I      intronic chr16:90017236(+) A-I      intronic chr16:90017229(+) A-I      intronic chr16:90025967(+) A-I      intronic chr16:90026896(+) A-I      intronic chr16:90028880(+) A-I      intronic chr16:90017225(+) A-I      intronic chr16:90017323(+) A-I      intronic chr16:90018403(+) A-I      intronic chr16:90022673(+) A-I      intronic chr16:90022350(+) A-I      intronic chr16:90016897(+) A-I      intronic chr16:90017138(+) A-I      intronic chr16:90017178(+) A-I      intronic chr16:90017192(+) A-I      intronic chr16:90022774(+) A-I      intronic chr16:90025958(+) A-I      intronic chr16:90023014(+) A-I      intronic chr16:90023026(+) A-I      intronic chr16:90023031(+) A-I      intronic chr16:90023048(+) A-I      intronic chr16:90016962(+) A-I      intronic chr16:90026116(+) A-I      intronic chr16:90018415(+) A-I      intronic chr16:90018516(+) A-I      intronic chr16:90016926(+) A-I      intronic chr16:90026821(+) A-I      intronic chr16:90017130(+) A-I      intronic chr16:90016876(+) A-I      intronic chr16:90017159(+) A-I      intronic chr16:90026904(+) A-I      intronic chr16:90016923(+) A-I      intronic chr16:90018366(+) A-I      intronic chr16:90022788(+) A-I      intronic chr16:90017927(+) A-I      intronic chr16:90017206(+) A-I      intronic chr16:90017782(+) A-I      intronic chr16:90017237(+) A-I      intronic chr16:90018492(+) A-I      intronic chr16:90018682(+) A-I      intronic chr16:90016937(+) A-I      intronic chr16:90017708(+) A-I      intronic chr16:90022611(+) A-I      intronic chr16:90017026(+) A-I      intronic chr16:90023043(+) A-I      intronic chr16:90017259(+) A-I      intronic chr16:90028949(+) A-I      intronic chr16:90022981(+) A-I      intronic chr16:90016998(+) A-I      intronic chr16:90017119(+) A-I      intronic chr16:90022731(+) A-I      intronic chr16:90017228(+) A-I      intronic chr16:90016935(+) A-I      intronic chr16:90022978(+) A-I      intronic chr16:90026818(+) A-I      intronic chr16:90022747(+) A-I      intronic chr16:90022717(+) A-I      intronic chr16:90016995(+) A-I      intronic chr16:90028794(+) A-I      intronic chr16:90016877(+) A-I      intronic chr16:90017330(+) A-I      intronic chr16:90017174(+) A-I      intronic chr16:90028812(+) A-I      intronic chr16:90017263(+) A-I      intronic chr16:90028953(+) A-I      intronic chr16:90022360(+) A-I      intronic chr16:90026112(+) A-I      intronic chr16:90017334(+) A-I      intronic chr16:90017238(+) A-I      intronic chr16:90017314(+) A-I      intronic chr16:90017153(+) A-I      intronic chr16:90022993(+) A-I      intronic chr16:90016914(+) A-I      intronic chr16:90017371(+) A-I      intronic chr16:90017268(+) A-I      intronic chr16:90016978(+) A-I      intronic chr16:90016941(+) A-I      intronic chr16:90017155(+) A-I      intronic chr16:90023131(+) A-I      intronic chr16:90017240(+) A-I      intronic chr16:90025934(+) A-I      intronic chr16:90016981(+) A-I      intronic chr16:90026862(+) A-I      intronic chr16:90017753(+) A-I      intronic chr16:90017223(+) A-I      intronic chr16:90017032(+) A-I      intronic chr16:90018680(+) A-I      intronic chr16:90028926(+) A-I      intronic chr16:90017033(+) A-I      intronic chr16:90017346(+) A-I      intronic chr16:90017243(+) A-I      intronic chr16:90028944(+) A-I      intronic chr16:90017110(+) A-I      intronic chr16:90022789(+) A-I      intronic chr16:90018803(+) A-I      intronic chr16:90023185(+) A-I      intronic chr16:90018886(+) A-I      intronic chr16:90017770(+) A-I      intronic chr16:90016714(+) A-I      intronic chr16:90016497(+) A-I      intronic chr16:90016671(+) A-I      intronic chr16:90016757(+) A-I      intronic chr16:90026880(+) A-I      intronic chr16:90018766(+) A-I      intronic chr16:90028879(+) A-I      intronic chr16:90018737(+) A-I      intronic chr16:90016668(+) A-I      intronic chr16:90028846(+) A-I      intronic chr16:90017290(+) A-I      intronic chr16:90018771(+) A-I      intronic chr16:90018810(+) A-I      intronic chr16:90018826(+) A-I      intronic chr16:90023537(+) A-I      intronic chr16:90016739(+) A-I      intronic chr16:90016759(+) A-I      intronic chr16:90016945(+) A-I      intronic chr16:90017105(+) A-I      intronic chr16:90028805(+) A-I      intronic chr16:90018784(+) A-I      intronic chr16:90016764(+) A-I      intronic chr16:90017836(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	DEF8	chr16:90016668(+) A-I intron -    19478186   //22327324 chr16:90016714(+) A-I intron -    19478186 chr16:90016739(+) A-I intron -    21960545 chr16:90018737(+) A-I intron -    21960545 chr16:90016739(+) A-G intron -    22484847 chr16:90018737(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	DEF8	chr16:90015115-90015116(+) m6A 5'UTR       24981863 chr16:90015200-90015201(+) m6A 5'UTR       24284625//25456834//24981863 chr16:90015834-90015835(+) m6A 5'UTR//exon//intron       24284625//25456834//24981863 chr16:90015931-90015932(+) m6A CDS//intron       24284625//24981863 chr16:90020622-90020623(+) m6A 5'UTR//intron       25456834//24981863 chr16:90020734-90020735(+) m6A CDS//exon//intron       24284625//24981863 chr16:90021654-90021655(+) m6A CDS//exon       24284625 chr16:90025502-90025503(+) m6A CDS//exon//intron       27773535 chr16:90025544-90025545(+) m6A CDS//exon//intron       27773535 chr16:90025573-90025574(+) m6A CDS//exon//intron       27773535 chr16:90025602-90025603(+) m6A CDS//exon//intron       27773535 chr16:90029783-90029784(+) m6A CDS//exon//intron       24284625 chr16:90030710-90030711(+) m6A CDS//exon//intron       24284625 chr16:90032270-90032271(+) m6A CDS//exon       24284625//24981863 chr16:90032380-90032381(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90032412-90032413(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90032453-90032454(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90032546-90032547(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032631-90032632(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032656-90032657(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032699-90032700(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032769-90032770(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032775-90032776(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr16:90032935-90032936(+) m6A 3'UTR//exon       24284625//25456834//24981863//22608085 chr16:90032959-90032960(+) m6A 3'UTR//exon       24284625//25456834//24981863//22608085 chr16:90033243-90033244(+) m6A 3'UTR//exon       24284625 chr16:90033423-90033424(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90033449-90033450(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90033471-90033472(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863 chr16:90033613-90033614(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//27773535 chr16:90033706-90033707(+) m6A 3'UTR//exon       24284625//25456834 chr16:90033718-90033719(+) m6A 3'UTR//exon       24284625//25456834 chr16:90033943-90033944(+) m6A 3'UTR//exon       27773535 chr16:90034189-90034190(+) m6A 3'UTR       24284625//24981863//22608085 chr16:90034209-90034210(+) m6A 3'UTR       24284625//24981863//22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	DEF8	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-10b
Interactor2: DEF8

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-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.