Basic Information:

  VIRBase ID:  

VHID00426694

  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-K12-10b:  MIMAT0002180          TFG:  NM_001195479     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-10b	TFG
miRBase Accession/Entrez ID	MIMAT0002180	10342
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	HMSNP//SPG57//TF6//TRKT3

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	TFG	chr3:100433283(+) A-I      intronic chr3:100446748(+) A-I      intronic chr3:100433224(+) A-I      intronic chr3:100433231(+) A-I      intronic chr3:100433225(+) A-I      intronic chr3:100433194(+) A-I      intronic chr3:100432798(+) A-I      intronic chr3:100432788(+) A-I      intronic chr3:100446806(+) A-I      intronic chr3:100433251(+) A-I      intronic chr3:100433265(+) A-I      intronic chr3:100440852(+) A-I      intronic chr3:100443767(+) A-I      intronic chr3:100443957(+) A-I      intronic chr3:100444367(+) A-I      intronic chr3:100444437(+) A-I      intronic chr3:100444523(+) A-I      intronic chr3:100444024(+) A-I      intronic chr3:100443817(+) A-I      intronic chr3:100444391(+) A-I      intronic chr3:100444558(+) A-I      intronic chr3:100444518(+) A-I      intronic chr3:100443822(+) A-I      intronic chr3:100432819(+) A-I      intronic chr3:100443877(+) A-I      intronic chr3:100432814(+) A-I      intronic chr3:100440858(+) A-I      intronic chr3:100450478(+) A-I      intronic chr3:100450501(+) A-I      intronic chr3:100443860(+) A-I      intronic chr3:100444519(+) A-I      intronic chr3:100444502(+) A-I      intronic chr3:100444403(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	TFG	chr3:100432814(+) A-G intron -    22484847 chr3:100432819(+) A-G intron -    22484847 chr3:100433080(+) A-G intron -    22484847 chr3:100433088(+) A-G intron -    22484847 chr3:100433244(+) A-C intron -    22484847 chr3:100440816(+) A-G intron -    22484847 chr3:100440858(+) A-G intron -    22484847 chr3:100443817(+) A-G intron -    22484847 chr3:100443822(+) A-G intron -    22484847 chr3:100443860(+) A-G intron -    22484847 chr3:100443877(+) A-G intron -    22484847 chr3:100443887(+) A-G intron -    22484847 chr3:100443932(+) A-G intron -    22484847 chr3:100444391(+) A-G intron -    22484847 chr3:100444403(+) A-G intron -    22484847 chr3:100444520(+) T-C intron -    22484847 chr3:100458749(+) T-C intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	TFG	chr3:100428208-100428209(+) m6A 5'UTR       24981863 chr3:100428231-100428232(+) m6A 5'UTR       24981863 chr3:100428308-100428309(+) m6A 5'UTR//intron       24981863 chr3:100428527-100428528(+) m6A 5'UTR//intron       24981863//22575960 chr3:100428618-100428619(+) m6A 5'UTR//intron       24981863 chr3:100432512-100432513(+) m6A 5'UTR       26404942 chr3:100432537-100432538(+) m6A CDS       26404942 chr3:100451453-100451454(+) m6A CDS       27773535 chr3:100455454-100455455(+) m6A CDS       27773535 chr3:100455538-100455539(+) m6A CDS       24981863//26404942//27773535 chr3:100461353-100461354(+) m6A exon//intron       24284625//24981863 chr3:100461423-100461424(+) m6A exon//intron       24284625 chr3:100463635-100463636(+) m6A exon//intron       24981863 chr3:100467009-100467010(+) m6A 3'UTR//CDS//exon       24284625//24981863 chr3:100467014-100467015(+) m6A 3'UTR//CDS//exon       24284625//24981863 chr3:100467153-100467154(+) m6A 3'UTR//CDS//exon       24284625//24981863//26404942//27773535 chr3:100467168-100467169(+) m6A 3'UTR//CDS//exon       24284625//24981863//26404942//27773535 chr3:100467251-100467252(+) m6A 3'UTR//CDS//exon       24284625//24981863//26404942//27773535 chr3:100467359-100467360(+) m6A 3'UTR//CDS//exon       24284625//24981863//27773535 chr3:100467428-100467429(+) m6A 3'UTR//exon       24284625//24981863//26404942//27773535 chr3:100467533-100467534(+) m6A 3'UTR//exon       26404942//27773535 chr3:100467541-100467542(+) m6A 3'UTR//exon       26404942//27773535 chr3:100467602-100467603(+) m6A 3'UTR//exon       27773535

RNA Localization:

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

Interaction Network (The top 100 interactions):

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

Evidence Support:

Weak-Evidence	PAR-CLIP
Support Database	VIRmiRNA

References:

PMID	22100165	Target region	3'UTR
Source	VIRmiRNA	Interactor1 expression	None
Tissue or cell line	BC-1 cells//BC-3 cells//BCBL-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.