Basic Information:

  VIRBase ID:  

VHID00439933

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.5908

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-9-5p:  MIMAT0002184          CHRNB1:  NM_000747     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-9-5p	CHRNB1
miRBase Accession/Entrez ID	MIMAT0002184	1140
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	ACHRB//CHRNB//CMS1D//CMS2A//CMS2C//SCCMS

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	CHRNB1	chr17:7355651(+) A-I      intronic chr17:7355640(+) A-I      intronic chr17:7353184(+) A-I      intronic chr17:7353220(+) A-I      intronic chr17:7360800(+) A-I      3'UTR chr17:7360814(+) A-I      3'UTR chr17:7360801(+) A-I      3'UTR chr17:7354699(+) A-I      intronic chr17:7351215(+) A-I      intronic chr17:7359635(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	CHRNB1	chr17:7355650(+) T-C intron -    22484847 chr17:7360801(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CHRNB1	chr17:7348832-7348833(+) m6A 5'UTR//exon//intron       - chr17:7348847-7348848(+) m6A 5'UTR//exon//intron       - chr17:7348880-7348881(+) m6A 5'UTR//exon//intron       - chr17:7348888-7348889(+) m6A 5'UTR//exon//intron       - chr17:7348928-7348929(+) m6A 5'UTR//exon//intron       - chr17:7348949-7348950(+) m6A exon//intron       - chr17:7348961-7348962(+) m6A exon//intron       - chr17:7358931-7358932(+) m6A 5'UTR//exon//intron       25456834//24981863//22608085 chr17:7358937-7358938(+) m6A 5'UTR//exon//intron       25456834//24981863//22608085 chr17:7358953-7358954(+) m1A 5'UTR//exon//intron       26863196 chr17:7359019-7359020(+) m6A 5'UTR//intron       25456834 chr17:7359124-7359125(+) m6A 5'UTR//CDS       24981863 chr17:7359165-7359166(+) m6A 5'UTR//CDS       24981863 chr17:7359241-7359242(+) m6A 5'UTR//CDS       24284625//24209618//25456834//24981863 chr17:7359249-7359250(+) m6A 5'UTR//CDS       24284625//24209618//25456834//24981863 chr17:7359911-7359912(+) m6A 5'UTR//CDS       24284625//24209618//25456834//24981863 chr17:7359938-7359939(+) m6A CDS       24284625//24209618//25456834//24981863 chr17:7359955-7359956(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr17:7359982-7359983(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr17:7360028-7360029(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr17:7360044-7360045(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360058-7360059(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360171-7360172(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360181-7360182(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360210-7360211(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360302-7360303(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360309-7360310(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr17:7360315-7360316(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CHRNB1	Chromatin K562 cells     - Exosome Blood     - Membrane HCC cell line (HepG2)     -

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-9-5p
Interactor2: CHRNB1

Evidence Support:

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

References:

PMID	22174674	Target region	None
Source	ViRBase//VmiReg	Interactor1 expression	None
Tissue or cell line	EA.hy926 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).