Basic Information:

  VIRBase ID:  

VHID00446614

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-8-3p:  MIMAT0002186          TMC6:  NR_168288     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-8-3p	TMC6
miRBase Accession/Entrez ID	MIMAT0002186	11322
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	EV1//EVER1//EVIN1//LAK-4P//lnc//TNRC6C-AS1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	TMC6	chr17:76112904(-) A-I      intronic chr17:76112915(-) A-I      intronic chr17:76112586(-) A-I      intronic chr17:76112325(-) A-I      intronic chr17:76112185(-) A-I      intronic chr17:76112928(-) A-I      intronic chr17:76112627(-) A-I      intronic chr17:76112621(-) A-I      intronic chr17:76116002(-) A-I      intronic chr17:76112782(-) A-I      intronic chr17:76112492(-) A-I      intronic chr17:76112629(-) A-I      intronic chr17:76112708(-) A-I      intronic chr17:76112935(-) A-I      intronic chr17:76112426(-) A-I      intronic chr17:76112861(-) A-I      intronic chr17:76112518(-) A-I      intronic chr17:76115808(-) A-I      intronic chr17:76112581(-) A-I      intronic chr17:76112878(-) A-I      intronic chr17:76112716(-) A-I      intronic chr17:76112898(-) A-I      intronic chr17:76112532(-) A-I      intronic chr17:76112196(-) A-I      intronic chr17:76112452(-) A-I      intronic chr17:76112909(-) A-I      intronic chr17:76112939(-) A-I      intronic chr17:76112234(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	TMC6	chr17:76112782(-) A-I intron -    21960545 chr17:76112492(-) A-G intron -    22484847 chr17:76112581(-) A-G intron -    22484847 chr17:76112898(-) A-G intron -    22484847 chr17:76116379(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	TMC6	chr17:76106654-76106655(-) m6A 3'UTR       25456834//28052920//27773535//27371828 chr17:76106713-76106714(-) m6A 3'UTR       24209618//25456834//28052920//27773535//27371828 chr17:76106744-76106745(-) m6A 3'UTR       24209618//25456834//28052920//27773535//27371828 chr17:76106766-76106767(-) m6A 3'UTR       24209618//25456834//28052920//27773535//27371828 chr17:76106987-76106988(-) m6A 3'UTR       25456834//28052920//27371828 chr17:76107001-76107002(-) m6A 3'UTR       25456834//28052920//27371828 chr17:76107020-76107021(-) m6A 3'UTR       25456834//28052920//27371828 chr17:76107140-76107141(-) m6A 3'UTR       27371828 chr17:76107224-76107225(-) m6A 3'UTR       28052920//27371828 chr17:76107364-76107365(-) m6A 3'UTR       25456834//24981863//28052920//27773535//27371828 chr17:76107399-76107400(-) m6A 3'UTR       25456834//24981863//28052920//27773535//27371828 chr17:76107506-76107507(-) m6A 3'UTR       24209618//25456834//24981863//28052920//27773535//27371828 chr17:76107554-76107555(-) m6A 3'UTR       24209618//25456834//28052920//27773535//27371828 chr17:76107745-76107746(-) m6A 3'UTR       25456834//28052920//27371828 chr17:76107802-76107803(-) m6A 3'UTR       24209618//25456834//28052920//27371828//22608085 chr17:76107834-76107835(-) m6A 3'UTR       24209618//25456834//28052920//27371828//22608085 chr17:76107883-76107884(-) m6A 3'UTR       25456834//28052920//27371828//22608085 chr17:76107946-76107947(-) m6A 3'UTR       25456834//28052920//27371828//27773536//22608085 chr17:76107984-76107985(-) m6A 3'UTR       25456834//28052920//27371828//27773536 chr17:76108023-76108024(-) m6A 3'UTR       25456834//28052920//27371828//27773536 chr17:76108062-76108063(-) m6A 3'UTR       25456834//27371828//27773536 chr17:76108097-76108098(-) m6A 3'UTR       25456834//27371828//27773536 chr17:76108136-76108137(-) m6A 3'UTR       27371828//27773536 chr17:76108171-76108172(-) m6A 3'UTR       27371828//27773536 chr17:76108208-76108209(-) m6A 3'UTR       27371828 chr17:76108243-76108244(-) m6A 3'UTR       27371828 chr17:76108282-76108283(-) m6A 3'UTR       27371828 chr17:76108319-76108320(-) m6A 3'UTR       25456834//27371828 chr17:76108357-76108358(-) m6A 3'UTR       25456834//27371828 chr17:76108395-76108396(-) m6A 3'UTR       25456834//27371828 chr17:76108433-76108434(-) m6A 3'UTR       27371828 chr17:76108470-76108471(-) m6A 3'UTR       27371828 chr17:76108585-76108586(-) m6A 3'UTR       - chr17:76108633-76108634(-) m6A 3'UTR       - chr17:76108661-76108662(-) m6A 3'UTR       25456834//28052920//27773535 chr17:76108674-76108675(-) m6A 3'UTR       25456834//24981863//28052920//27773535 chr17:76108690-76108691(-) m6A 3'UTR       25456834//24981863//28052920//27773535 chr17:76108803-76108804(-) m6A 3'UTR       24209618//25456834//27773535 chr17:76108847-76108848(-) m6A 3'UTR       25456834 chr17:76108904-76108905(-) m6A 3'UTR       25456834 chr17:76109035-76109036(-) m6A 3'UTR//exon       24284625//25456834//24981863//28052920//27773535//27371828 chr17:76109052-76109053(-) m6A 3'UTR//exon       24284625//25456834//24981863//28052920//27773535//27371828 chr17:76109135-76109136(-) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536 chr17:76109144-76109145(-) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536 chr17:76109152-76109153(-) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536 chr17:76109185-76109186(-) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536 chr17:76109240-76109241(-) m6A CDS//exon       27773535//27371828 chr17:76109284-76109285(-) m6A CDS//exon       27773535//27371828 chr17:76109694-76109695(-) m6A CDS//exon       - chr17:76113683-76113684(-) m6A CDS//exon//intron       - chr17:76113690-76113691(-) m6A CDS//exon//intron       - chr17:76116578-76116579(-) Tm 3'UTR//exon//intron       - chr17:76116713-76116714(-) m6A 3'UTR//exon//intron       - chr17:76116744-76116745(-) m6A 3'UTR//CDS//exon//intron       - chr17:76116760-76116761(-) m6A 3'UTR//CDS//exon//intron       - chr17:76116781-76116782(-) m6A 3'UTR//CDS//exon//intron       - chr17:76116881-76116882(-) m6A 3'UTR//CDS//exon//intron       24284625 chr17:76117689-76117690(-) m6A CDS//exon//intron       24284625//27371828 chr17:76121052-76121053(-) m6A CDS//exon//intron       27773536 chr17:76121191-76121192(-) m6A exon//intron       27773536 chr17:76121289-76121290(-) m6A 5'UTR//CDS//exon       27773536 chr17:76121829-76121830(-) m6A 5'UTR//CDS//exon       - chr17:76121880-76121881(-) m6A 3'UTR//5'UTR//CDS//exon       - chr17:76122347-76122348(-) m6A exon//intron       27371828 chr17:76122432-76122433(-) m6A 3'UTR//5'UTR//CDS//exon       27371828//27773536 chr17:76122863-76122864(-) m6A CDS//exon//intron       24284625//27371828//27773536 chr17:76122873-76122874(-) m6A CDS//exon//intron       24284625//27371828//27773536 chr17:76122914-76122915(-) m6A 5'UTR//exon//intron       24284625//27371828//27773536 chr17:76122935-76122936(-) m6A 5'UTR//exon//intron       24284625//27371828//27773536 chr17:76123019-76123020(-) m6A 5'UTR//exon//intron       27371828 chr17:76123039-76123040(-) m6A 5'UTR//exon//intron       27371828 chr17:76123095-76123096(-) m6A 5'UTR//intron       24981863//27371828 chr17:76124771-76124772(-) m6A 5'UTR//exon//intron       24981863 chr17:76124833-76124834(-) m6A 5'UTR//exon//intron       27371828 chr17:76126761-76126762(-) m6A 5'UTR//intron       27371828 chr17:76127124-76127125(-) m6A 5'UTR//intron       28052920//27371828 chr17:76127162-76127163(-) m6A 5'UTR//intron       28052920//27371828 chr17:76127179-76127180(-) m6A 5'UTR//intron       28052920//27371828 chr17:76127237-76127238(-) m6A 5'UTR//intron       27371828 chr17:76127292-76127293(-) m6A 5'UTR//intron       25456834//27371828 chr17:76127317-76127318(-) m6A 5'UTR//intron       25456834//27371828 chr17:76127389-76127390(-) m6A 5'UTR//intron       25456834//27371828 chr17:76128462-76128463(-) m6A 5'UTR//exon       -

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	kshv-miR-K12-8-3p	Exosome Jurkat-derived T cell line (J77cl20)     21505438
	TMC6	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Membrane K562 cells     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HeLa-S3 cells|K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-8-3p
Interactor2: TMC6

Evidence Support:

Weak-Evidence	Microarray
Prediction-Evidence	miRanda//Rep//RNAHybrid//Targetscan
Support Database	RepTar//ViRBase//VmiReg

References:

PMID	22174674	Target region	None
Source	RepTar//ViRBase//VmiReg	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).