Basic Information:

  VIRBase ID:  

VHID00462156

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-4-5p:  MIMAT0002191          RAP2C:  NM_001271187     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-4-5p	RAP2C
miRBase Accession/Entrez ID	MIMAT0002191	57826
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	RAP2C	chrX:131342288(-) A-I      intronic chrX:131344490(-) A-I      intronic chrX:131344485(-) A-I      intronic chrX:131344484(-) A-I      intronic chrX:131342168(-) A-I      intronic chrX:131344499(-) A-I      intronic chrX:131344548(-) A-I      intronic chrX:131344551(-) A-I      intronic chrX:131344464(-) A-I      intronic chrX:131342240(-) A-I      intronic chrX:131342229(-) A-I      intronic chrX:131342219(-) A-I      intronic chrX:131342200(-) A-I      intronic chrX:131342170(-) A-I      intronic chrX:131342197(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	RAP2C	chrX:131344650(-) A-I intron -    22327324 chrX:131344608(-) A-I intron -    21960545

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	RAP2C	chrX:131339456-131339457(-) m6A 3'UTR       24284625//24209618//24981863//27773535//22575960//22608085 chrX:131339536-131339537(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//27773535//22575960//22608085 chrX:131339551-131339552(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085 chrX:131339573-131339574(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131339609-131339610(-) m6A 3'UTR//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348253-131348254(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348282-131348283(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chrX:131348314-131348315(-) m6A CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22608085 chrX:131348384-131348385(-) m6A CDS//exon       24284625//24981863//27371828//22608085 chrX:131351115-131351116(-) m6A 5'UTR//CDS//exon       24284625//24981863//27371828//22575960//22608085 chrX:131351126-131351127(-) m6A 5'UTR//CDS//exon       24284625//24981863//27371828//22575960//22608085 chrX:131351156-131351157(-) m6A 5'UTR//CDS//exon       24284625//24981863//27773535//27371828//22575960//22608085 chrX:131351217-131351218(-) m6A CDS//intron       24284625//24981863//27773535//27371828//22575960//22608085 chrX:131351299-131351300(-) m6A 5'UTR//intron       24284625//24981863//27773535//22608085 chrX:131351612-131351613(-) Y 5'UTR//intron       26075521 chrX:131351799-131351800(-) m6A 5'UTR//exon//intron       27371828//27773536 chrX:131352018-131352019(-) m6A 5'UTR//intron       24209618//27371828//27773536

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	RAP2C	Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)     -

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-4-5p
Interactor2: RAP2C

Evidence Support:

Weak-Evidence	Microarray
Support Database	ViRBase

References:

PMID	22174674	Target region	None
Source	ViRBase	Interactor1 expression	None
Tissue or cell line	DG-75 cells	Interactor2 expression	Downregulation
Description	As KSHV putative direct targets we extracted transcripts that were significantly down-regulated significantly in the replicate experiments, and which contained at least one seed-match to one of the KSHV miRNAs. We identified 704 putative direct targets in DG-75 cells (Figure 3B), and 980 putative direct targets in EA.hy926 cells (Figure 3C). A complete list of putative direct targets can be found in Dataset S2 for DG-75 cells and in Dataset S3 for EA.hy926 cells. The overlap between the two datasets contained 153 putative direct targets (Dataset S4).