Basic Information:

  VIRBase ID:  

VHID00484342

  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-K12-1-3p:  MIMAT0015214          HMGCR:  NM_000859     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-1-3p	HMGCR
miRBase Accession/Entrez ID	MIMAT0015214	3156
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	LDLCQ3

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	HMGCR	chr5:74642661(+) A-I      intronic chr5:74640611(+) A-I      intronic chr5:74642019(+) A-I      intronic chr5:74641916(+) A-I      intronic chr5:74642824(+) A-I      intronic chr5:74642657(+) A-I      intronic chr5:74642048(+) A-I      intronic chr5:74642022(+) A-I      intronic chr5:74642673(+) A-I      intronic chr5:74642672(+) A-I      intronic chr5:74642765(+) A-I      intronic chr5:74640492(+) A-I      intronic chr5:74642583(+) A-I      intronic chr5:74641864(+) A-I      intronic chr5:74642758(+) A-I      intronic chr5:74642074(+) A-I      intronic chr5:74642668(+) A-I      intronic chr5:74642026(+) A-I      intronic chr5:74652700(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	HMGCR	chr5:74638922(+) T-A intron -    22484847 chr5:74641864(+) A-G intron -    22484847 chr5:74641956(+) A-G intron -    22484847 chr5:74642022(+) A-G intron -    22484847 chr5:74642074(+) A-G intron -    22484847 chr5:74642099(+) A-G intron -    22484847 chr5:74642583(+) A-G intron -    22484847 chr5:74642657(+) A-G intron -    22484847 chr5:74642668(+) A-G intron -    22484847 chr5:74642671(+) A-G intron -    22484847 chr5:74642672(+) A-G intron -    22484847 chr5:74642673(+) A-G intron -    22484847 chr5:74642758(+) A-G intron -    22484847 chr5:74642765(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	HMGCR	chr5:74632276-74632277(+) m6A 5'UTR       24981863 chr5:74632285-74632286(+) m6A 5'UTR       24981863 chr5:74632322-74632323(+) m6A 5'UTR       24981863 chr5:74646738-74646739(+) m6A CDS//exon       27773535 chr5:74646913-74646914(+) m6A CDS//exon       27773535 chr5:74646970-74646971(+) m6A CDS//exon       26404942//27773535 chr5:74646980-74646981(+) m6A CDS//exon       26404942//27773535 chr5:74647005-74647006(+) m6A CDS//exon       26404942//27773535 chr5:74647047-74647048(+) m6A CDS//exon       26404942//27773535 chr5:74647066-74647067(+) m6A CDS//exon       26404942//27773535 chr5:74655884-74655885(+) m6A CDS//exon       24284625//24209618//22608085 chr5:74655931-74655932(+) m6A CDS//exon       24284625//24209618//24981863//27773535//22608085 chr5:74656132-74656133(+) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//22608085 chr5:74656158-74656159(+) m6A CDS//exon       24284625//24209618//24981863//26404942//27773535//22608085 chr5:74656185-74656186(+) m6A 3'UTR//exon       24284625//24209618//24981863//26404942//27773535//22608085 chr5:74656191-74656192(+) m6A 3'UTR//exon       24284625//24209618//24981863//26404942//27773535//22608085 chr5:74656214-74656215(+) m6A 3'UTR//exon       24284625//24209618//24981863//26404942//27773535//22608085 chr5:74656288-74656289(+) m6A 3'UTR//exon       24284625//24209618//24981863//26404942//22608085 chr5:74656342-74656343(+) m6A 3'UTR//exon       24284625//24981863//26404942//22608085 chr5:74656357-74656358(+) m6A 3'UTR       22608085 chr5:74656627-74656628(+) m6A 3'UTR       27773535 chr5:74656738-74656739(+) m6A 3'UTR       27773535 chr5:74656761-74656762(+) m6A 3'UTR       27773535 chr5:74657456-74657457(+) Y 3'UTR       26075521

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	HMGCR	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Insoluble cytoplasm HCC cell line (HepG2)     - Membrane K562 cells     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus Colon cancer cells     24393600 Nucleus HCC cell line (HepG2)|HeLa-S3 cells     - Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-1-3p
Interactor2: HMGCR

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-1 cells//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 S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.