Basic Information:

  VIRBase ID:  

VHID00462240

  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-K12-4-5p:  MIMAT0002191          OGFOD2:  NM_001304835     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-4-5p	OGFOD2
miRBase Accession/Entrez ID	MIMAT0002191	79676
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	OGFOD2	chr12:123459253-123459254(+) m6A 5'UTR//exon       24981863 chr12:123459287-123459288(+) m6A 5'UTR//intron       25456834//24981863 chr12:123459301-123459302(+) m6A 5'UTR//exon//intron       25456834//24981863 chr12:123459321-123459322(+) m6A 5'UTR//exon//intron       25456834//24981863 chr12:123459345-123459346(+) m6A 5'UTR//exon//intron       25456834//24981863//22608085 chr12:123459386-123459387(+) m6A 5'UTR//exon//intron       24209618//25456834//24981863//22608085 chr12:123459395-123459396(+) m6A 5'UTR//exon//intron       24209618//25456834//24981863//22608085 chr12:123459412-123459413(+) m6A 5'UTR//exon//intron       24209618//25456834//24981863//22608085 chr12:123459589-123459590(+) m6A 5'UTR//exon//intron       25456834 chr12:123459652-123459653(+) m6A 5'UTR//exon//intron       - chr12:123459919-123459920(+) m6A CDS//exon//intron       24981863 chr12:123460391-123460392(+) m6A 5'UTR//CDS//exon//intron       24284625 chr12:123460893-123460894(+) m6A 5'UTR//CDS//exon//intron       27773536//22608085 chr12:123460900-123460901(+) m6A 5'UTR//CDS//exon//intron       27773536//22608085 chr12:123460999-123461000(+) m6A exon//intron       - chr12:123461478-123461479(+) m6A 3'UTR//5'UTR//CDS//exon//intron       24284625 chr12:123461507-123461508(+) m6A 3'UTR//5'UTR//CDS//exon//intron       24284625 chr12:123461536-123461537(+) m6A 5'UTR//exon//intron       - chr12:123461546-123461547(+) m6A 5'UTR//exon//intron       - chr12:123462543-123462544(+) m6A 5'UTR//exon//intron       24284625 chr12:123462572-123462573(+) m6A 5'UTR//exon//intron       24284625 chr12:123462738-123462739(+) m6A 5'UTR//intron       24981863 chr12:123462772-123462773(+) m6A intron       24981863 chr12:123463075-123463076(+) m6A 3'UTR//5'UTR//CDS//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr12:123463105-123463106(+) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//22575960//22608085 chr12:123463453-123463454(+) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//22608085 chr12:123463744-123463745(+) m6A 3'UTR//CDS//exon       24284625//24981863//27773536 chr12:123464271-123464272(+) m6A 3'UTR       24284625//24209618//24981863 chr12:123464337-123464338(+) m6A 3'UTR       24284625//24981863 chr12:123464368-123464369(+) m6A 3'UTR       24284625//24981863 chr12:123464429-123464430(+) m6A 3'UTR       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	OGFOD2	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Nucleolus K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-4-5p
Interactor2: OGFOD2

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.