Basic Information:

  VIRBase ID:  

VHID00432918

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.9133

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-1-5p:  MIMAT0002182          RFXAP:  NM_000538     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-1-5p	RFXAP
miRBase Accession/Entrez ID	MIMAT0002182	5994
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	-

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	RFXAP	chr13:37402482(+) A-I      3'UTR chr13:37402475(+) A-I      3'UTR chr13:37402490(+) A-I      3'UTR chr13:37402483(+) A-I      3'UTR chr13:37395543(+) A-I      intronic chr13:37395764(+) A-I      intronic chr13:37396364(+) A-I      intronic chr13:37400105(+) A-I      intronic chr13:37396345(+) A-I      intronic chr13:37396302(+) A-I      intronic chr13:37396245(+) A-I      intronic chr13:37395616(+) A-I      intronic chr13:37395565(+) A-I      intronic chr13:37396822(+) A-I      intronic chr13:37396369(+) A-I      intronic chr13:37395744(+) A-I      intronic chr13:37400346(+) A-I      intronic chr13:37396305(+) A-I      intronic chr13:37395252(+) A-I      intronic chr13:37395689(+) A-I      intronic chr13:37395724(+) A-I      intronic chr13:37395536(+) A-I      intronic chr13:37395368(+) A-I      intronic chr13:37395740(+) A-I      intronic chr13:37396357(+) A-I      intronic chr13:37395653(+) A-I      intronic chr13:37395259(+) A-I      intronic chr13:37395217(+) A-I      intronic chr13:37395542(+) A-I      intronic chr13:37396257(+) A-I      intronic chr13:37396308(+) A-I      intronic chr13:37400189(+) A-I      intronic chr13:37395294(+) A-I      intronic chr13:37395208(+) A-I      intronic chr13:37395669(+) A-I      intronic chr13:37395274(+) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	RFXAP	chr13:37393765-37393766(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37393774-37393775(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37393783-37393784(+) m6A CDS       24284625//25456834//24981863//22608085 chr13:37393839-37393840(+) m6A CDS       24284625//25456834//24981863//22608085 chr13:37393911-37393912(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37393938-37393939(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37393967-37393968(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37393985-37393986(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37394008-37394009(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37394025-37394026(+) m1A CDS       26863196 chr13:37394044-37394045(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37394055-37394056(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37394087-37394088(+) m6A CDS       24284625//24209618//25456834//24981863//22608085 chr13:37399596-37399597(+) m6A CDS//exon       24284625//24209618//25456834//24981863//22608085 chr13:37399603-37399604(+) m6A CDS//exon       24284625//24209618//25456834//24981863//22608085 chr13:37399632-37399633(+) m6A CDS//exon       24284625//24209618//24981863//22608085 chr13:37399647-37399648(+) m6A CDS//exon       24284625//24209618//24981863//22608085 chr13:37399668-37399669(+) m6A CDS//exon       24284625//24981863//22608085 chr13:37401820-37401821(+) m6A CDS//exon       24284625//24981863//22608085 chr13:37401859-37401860(+) m6A CDS//exon       24284625//24981863//22608085 chr13:37401878-37401879(+) m6A CDS//exon       24284625//24981863//22608085 chr13:37401894-37401895(+) m6A 3'UTR//intron       24981863//22608085 chr13:37401905-37401906(+) m6A 3'UTR//intron       24981863//22608085 chr13:37401959-37401960(+) m6A 3'UTR//intron       22608085 chr13:37401991-37401992(+) m6A 3'UTR//intron       22608085 chr13:37401997-37401998(+) m6A 3'UTR//intron       22608085 chr13:37402568-37402569(+) Y 3'UTR//intron       26075521

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	RFXAP	Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleoplasm K562 cells     -

Interaction Network (The top 100 interactions):

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

Evidence Support:

Strong-Evidence	3'UTR indicator assay
Weak-Evidence	Microarray//PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//Targetscan
Support Database	RepTar//ViRBase//VIRmiRNA//VmiReg

References:

PMID	22100165	Target region	3'UTR
Source	RepTar//ViRBase//VIRmiRNA//VmiReg	Interactor1 expression	None
Tissue or cell line	BC-1 cells//BJAB cells	Interactor2 expression	None
Description	We focused this analysis mostly on 3'UTRs of mRNAs encoding proteins with functions of potential relevance to KSHV biology and pathogenesis (Table S11). Thirty-six combinations of 3'UTR indicators and KSHV miRNAs with PAR-CLIP interactions were tested for regulation. Nine of these interactions were independently also predicted by microarray analysis of the BJAB cell pools expressing miR-K1, miR-K4-3p, or miR-K11 described above (i.e. for miR-K1: NMI, RAD21, BCL11A, RFXAP; for miR-K4-3p: TPD52, GRB2, MCC, YWHAB; for miR-K11: WEE1). Targets were representative of the full range of seed match types observed in the libraries (Tables S6 and S11).