Basic Information:

  VIRBase ID:  

VHID00432385

  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-K12-1-5p:  MIMAT0002182          HDAC2:  NR_073443     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-1-5p	HDAC2
miRBase Accession/Entrez ID	MIMAT0002182	3066
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	HD2//KDAC2//RPD3//YAF1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	HDAC2	chr6:114265700(-) A-I      intronic chr6:114265806(-) A-I      intronic chr6:114265703(-) A-I      intronic chr6:114265885(-) A-I      intronic chr6:114284316(-) A-I      intronic chr6:114284339(-) A-I      intronic chr6:114284385(-) A-I      intronic chr6:114284515(-) A-I      intronic chr6:114284512(-) A-I      intronic chr6:114257976(-) A-I      3'UTR chr6:114257971(-) A-I      3'UTR chr6:114258008(-) A-I      3'UTR chr6:114258007(-) A-I      3'UTR chr6:114257997(-) A-I      3'UTR chr6:114257993(-) A-I      3'UTR chr6:114287552(-) A-I      intronic chr6:114284537(-) A-I      intronic chr6:114287633(-) A-I      intronic chr6:114284016(-) A-I      intronic chr6:114271767(-) A-I      intronic chr6:114283880(-) A-I      intronic chr6:114286598(-) A-I      intronic chr6:114265930(-) A-I      intronic chr6:114258032(-) A-I      3'UTR chr6:114288360(-) A-I      intronic chr6:114288389(-) A-I      intronic chr6:114284276(-) A-I      intronic chr6:114284451(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	HDAC2	chr6:114261880(-) T-A exon 3'UTR    21725310 chr6:114283943(-) A-G intron -    22484847 chr6:114284016(-) A-G intron -    22484847 chr6:114284537(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	HDAC2	chr6:114259443-114259444(-) m6A 3'UTR       27773535 chr6:114259464-114259465(-) m6A 3'UTR       27773535 chr6:114260979-114260980(-) m6A 3'UTR       27773535 chr6:114261964-114261965(-) m6A 3'UTR//exon       27773535 chr6:114262113-114262114(-) m6A 3'UTR//exon       24981863//27773535 chr6:114262147-114262148(-) m6A 3'UTR//exon       24981863//27773535//22608085 chr6:114262239-114262240(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114262884-114262885(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114262901-114262902(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114264517-114264518(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114264525-114264526(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114264532-114264533(-) m6A CDS//exon       24981863//28052920//27773535//27371828//22575960//22608085 chr6:114264657-114264658(-) m6A CDS//exon       24981863//27773535 chr6:114265457-114265458(-) m6A CDS//exon       24981863//27773535 chr6:114265487-114265488(-) m6A CDS//exon       24981863 chr6:114279852-114279853(-) m6A CDS//exon       24981863//26404942 chr6:114292187-114292188(-) m6A 5'UTR//exon//intron       24284625//25456834//24981863//27371828//27773536//22575960

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	HDAC2	Chromatin K562 cells     - Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)     - Exosome Blood     - Nucleoplasm K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus HCC cell line (HepG2)     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-1-5p
Interactor2: HDAC2

Evidence Support:

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

References:

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