Basic Information:

  VIRBase ID:  

VHID00423173

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-10a-3p:  MIMAT0002179          CLTC:  NM_001288653     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-10a-3p	CLTC
miRBase Accession/Entrez ID	MIMAT0002179	1213
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	CHC//CHC17//CLH-17//CLTCL2//Hc//MRD56

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	CLTC	chr17:57770181(+) A-I      intronic chr17:57770164(+) A-I      intronic chr17:57711405(+) A-I      intronic chr17:57711387(+) A-I      intronic chr17:57770518(+) A-I      intronic chr17:57770521(+) A-I      intronic chr17:57711459(+) A-I      intronic chr17:57711395(+) A-I      intronic chr17:57711339(+) A-I      intronic chr17:57711309(+) A-I      intronic chr17:57718809(+) A-I      intronic chr17:57770570(+) A-I      intronic chr17:57770210(+) A-I      intronic chr17:57770134(+) A-I      intronic chr17:57769446(+) A-I      intronic chr17:57768917(+) A-I      intronic chr17:57768731(+) A-I      intronic chr17:57735588(+) A-I      intronic chr17:57735573(+) A-I      intronic chr17:57702993(+) A-I      intronic chr17:57718776(+) A-I      intronic chr17:57718775(+) A-I      intronic chr17:57718309(+) A-I      intronic chr17:57718260(+) A-I      intronic chr17:57717816(+) A-I      intronic chr17:57717133(+) A-I      intronic chr17:57717114(+) A-I      intronic chr17:57770649(+) A-I      intronic chr17:57770567(+) A-I      intronic chr17:57770572(+) A-I      intronic chr17:57770454(+) A-I      intronic chr17:57702997(+) A-I      intronic chr17:57770613(+) A-I      intronic chr17:57718877(+) A-I      intronic chr17:57718883(+) A-I      intronic chr17:57770472(+) A-I      intronic chr17:57770532(+) A-I      intronic chr17:57770552(+) A-I      intronic chr17:57714710(+) A-I      intronic chr17:57714952(+) A-I      intronic chr17:57718887(+) A-I      intronic chr17:57718894(+) A-I      intronic chr17:57730694(+) A-I      intronic chr17:57730696(+) A-I      intronic chr17:57731497(+) A-I      intronic chr17:57732031(+) A-I      intronic chr17:57714670(+) A-I      intronic chr17:57770653(+) A-I      intronic chr17:57714395(+) A-I      intronic chr17:57735009(+) A-I      intronic chr17:57714263(+) A-I      intronic chr17:57714203(+) A-I      intronic chr17:57702973(+) A-I      intronic chr17:57735036(+) A-I      intronic chr17:57714968(+) A-I      intronic chr17:57717109(+) A-I      intronic chr17:57718864(+) A-I      intronic chr17:57718847(+) A-I      intronic chr17:57714669(+) A-I      intronic chr17:57717069(+) A-I      intronic chr17:57770451(+) A-I      intronic chr17:57769518(+) A-I      intronic chr17:57717935(+) A-I      intronic chr17:57770607(+) A-I      intronic chr17:57717970(+) A-I      intronic chr17:57718333(+) A-I      intronic chr17:57714154(+) A-I      intronic chr17:57735667(+) A-I      intronic chr17:57770494(+) A-I      intronic chr17:57718482(+) A-I      intronic chr17:57734139(+) A-I      intronic chr17:57700008(+) A-I      intronic chr17:57770624(+) A-I      intronic chr17:57770630(+) A-I      intronic chr17:57718815(+) A-I      intronic chr17:57711406(+) A-I      intronic chr17:57770098(+) A-I      intronic chr17:57770605(+) A-I      intronic chr17:57770072(+) A-I      intronic chr17:57702921(+) A-I      intronic chr17:57711289(+) A-I      intronic chr17:57710760(+) A-I      intronic chr17:57711382(+) A-I      intronic chr17:57702969(+) A-I      intronic chr17:57769519(+) A-I      intronic chr17:57770203(+) A-I      intronic chr17:57770470(+) A-I      intronic chr17:57770140(+) A-I      intronic chr17:57715038(+) A-I      intronic chr17:57762133(+) A-I      intronic chr17:57770115(+) A-I      intronic chr17:57770143(+) A-I      intronic chr17:57770184(+) A-I      intronic chr17:57770102(+) A-I      intronic chr17:57702550(+) A-I      intronic chr17:57770273(+) A-I      intronic chr17:57770541(+) A-I      intronic chr17:57770617(+) A-I      intronic chr17:57702754(+) A-I      intronic chr17:57735417(+) A-I      intronic chr17:57770601(+) A-I      intronic chr17:57770198(+) A-I      intronic chr17:57715041(+) A-I      intronic chr17:57770685(+) A-I      intronic chr17:57770640(+) A-I      intronic chr17:57706149(+) A-I      intronic chr17:57770703(+) A-I      intronic chr17:57715036(+) A-I      intronic chr17:57770643(+) A-I      intronic chr17:57718294(+) A-I      intronic chr17:57734135(+) A-I      intronic chr17:57770549(+) A-I      intronic chr17:57770116(+) A-I      intronic chr17:57770581(+) A-I      intronic chr17:57717082(+) A-I      intronic chr17:57702946(+) A-I      intronic chr17:57711444(+) A-I      intronic chr17:57718401(+) A-I      intronic chr17:57770450(+) A-I      intronic chr17:57718810(+) A-I      intronic chr17:57770041(+) A-I      intronic chr17:57770550(+) A-I      intronic chr17:57718400(+) A-I      intronic chr17:57770127(+) A-I      intronic chr17:57770275(+) A-I      intronic chr17:57770175(+) A-I      intronic chr17:57770566(+) A-I      intronic chr17:57770660(+) A-I      intronic chr17:57706100(+) A-I      intronic chr17:57735099(+) A-I      intronic chr17:57735008(+) A-I      intronic chr17:57742588(+) A-I      intronic chr17:57734083(+) A-I      intronic chr17:57711403(+) A-I      intronic chr17:57770688(+) A-I      intronic chr17:57761889(+) A-I      intronic chr17:57749242(+) A-I      intronic chr17:57717858(+) A-I      intronic chr17:57764386(+) A-I      intronic chr17:57734161(+) A-I      intronic chr17:57770445(+) A-I      intronic chr17:57697524(+) A-I      NonSyn:Glu->Gly chr17:57702904(+) A-I      intronic chr17:57770466(+) A-I      intronic chr17:57717855(+) A-I      intronic chr17:57718424(+) A-I      intronic chr17:57770542(+) A-I      intronic chr17:57713416(+) A-I      intronic chr17:57770137(+) A-I      intronic chr17:57702251(+) A-I      intronic chr17:57770139(+) A-I      intronic chr17:57734294(+) A-I      intronic chr17:57770097(+) A-I      intronic chr17:57734295(+) A-I      intronic chr17:57717887(+) A-I      intronic chr17:57735018(+) A-I      intronic chr17:57715042(+) A-I      intronic chr17:57770529(+) A-I      intronic chr17:57770078(+) A-I      intronic chr17:57735037(+) A-I      intronic chr17:57702233(+) A-I      intronic chr17:57735634(+) A-I      intronic chr17:57718226(+) A-I      intronic chr17:57770639(+) A-I      intronic chr17:57770680(+) A-I      intronic chr17:57711291(+) A-I      intronic chr17:57734866(+) A-I      intronic chr17:57717966(+) A-I      intronic chr17:57704399(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	CLTC	chr17:57770198(+) A-I intron -    22327324 chr17:57710760(+) A-G intron -    22484847 chr17:57711291(+) A-G intron -    22484847 chr17:57711403(+) A-G intron -    22484847 chr17:57769679(+) A-T intron -    22484847 chr17:57770115(+) A-G intron -    22484847 chr17:57770137(+) A-G intron -    22484847 chr17:57770139(+) A-G intron -    22484847 chr17:57770140(+) A-G intron -    22484847 chr17:57770198(+) A-G intron -    22484847 chr17:57770466(+) A-G intron -    22484847 chr17:57770541(+) A-G intron -    22484847 chr17:57770542(+) A-G intron -    22484847 chr17:57770549(+) A-G intron -    22484847 chr17:57770601(+) A-G intron -    22484847 chr17:57770605(+) A-G intron -    22484847 chr17:57770640(+) A-G intron -    22484847 chr17:57770660(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CLTC	chr17:57697339-57697340(+) Y 5'UTR       26075521 chr17:57697471-57697472(+) m6A 5'UTR       22575960 chr17:57721664-57721665(+) m6A CDS       26404942 chr17:57721785-57721786(+) m6A CDS       26404942 chr17:57721799-57721800(+) m6A CDS       26404942 chr17:57724766-57724767(+) m6A CDS//intron       26404942 chr17:57724990-57724991(+) m6A CDS//intron       26404942 chr17:57725668-57725669(+) m6A 3'UTR//CDS//exon//intron       - chr17:57725693-57725694(+) Am 3'UTR//CDS//exon//intron       - chr17:57725796-57725797(+) m6A exon//intron       - chr17:57733322-57733323(+) m6A CDS//exon//intron       26404942 chr17:57733374-57733375(+) m6A CDS//exon//intron       26404942 chr17:57733384-57733385(+) m6A CDS//exon//intron       26404942 chr17:57733396-57733397(+) m6A exon//intron       26404942 chr17:57733404-57733405(+) m6A exon//intron       26404942 chr17:57733442-57733443(+) m6A exon//intron       26404942 chr17:57736158-57736159(+) m6A 3'UTR//intron       26404942 chr17:57737779-57737780(+) m6A 3'UTR//CDS//intron       26404942 chr17:57737867-57737868(+) m6A 3'UTR//CDS//intron       26404942 chr17:57738822-57738823(+) m6A 3'UTR//CDS//intron       26404942 chr17:57738866-57738867(+) m6A 3'UTR//CDS//intron       26404942 chr17:57738903-57738904(+) m6A 3'UTR//CDS//intron       26404942 chr17:57738910-57738911(+) m6A 3'UTR//CDS//intron       26404942 chr17:57738970-57738971(+) m6A 3'UTR//CDS//intron       26404942 chr17:57741219-57741220(+) m6A 3'UTR//CDS//intron       26404942//22575960 chr17:57741245-57741246(+) m6A 3'UTR//CDS//intron       26404942//22575960 chr17:57746179-57746180(+) m6A CDS//intron       26404942 chr17:57746220-57746221(+) m6A CDS//intron       24981863//26404942 chr17:57752087-57752088(+) Y CDS//exon//intron       26075521 chr17:57754320-57754321(+) m6A CDS//exon//intron       26404942 chr17:57754406-57754407(+) m6A CDS//exon//intron       26404942 chr17:57758370-57758371(+) m6A CDS//intron       26404942 chr17:57758412-57758413(+) m6A CDS//intron       26404942 chr17:57758666-57758667(+) m6A CDS//intron       26404942 chr17:57759069-57759070(+) m6A CDS//intron       26404942 chr17:57759634-57759635(+) m6A CDS//intron       22575960 chr17:57759644-57759645(+) m6A CDS//intron       22575960 chr17:57759699-57759700(+) m6A CDS       26404942//22575960 chr17:57759704-57759705(+) m6A CDS       26404942//22575960 chr17:57759726-57759727(+) m6A CDS       26404942//22575960 chr17:57759764-57759765(+) m6A CDS       26404942//22575960 chr17:57760142-57760143(+) m6A CDS       26404942 chr17:57760320-57760321(+) m6A CDS       26404942//22575960 chr17:57760356-57760357(+) m6A CDS       22575960 chr17:57760484-57760485(+) Cm CDS       - chr17:57760505-57760506(+) m6A CDS       26404942 chr17:57760764-57760765(+) m6A CDS       26404942 chr17:57760785-57760786(+) m6A CDS       26404942 chr17:57760999-57761000(+) m6A CDS       26404942 chr17:57767941-57767942(+) m6A exon//intron       - chr17:57768040-57768041(+) m6A CDS//exon       - chr17:57768053-57768054(+) m6A CDS//exon       - chr17:57771116-57771117(+) m6A CDS//exon       22575960 chr17:57771179-57771180(+) m6A CDS//exon       22575960 chr17:57771254-57771255(+) m6A 3'UTR//exon       22575960 chr17:57771294-57771295(+) m6A 3'UTR//exon       22575960 chr17:57771332-57771333(+) m6A 3'UTR//exon       26404942//22575960 chr17:57771356-57771357(+) m6A 3'UTR//exon       26404942//22575960 chr17:57771377-57771378(+) m6A 3'UTR//exon       26404942//22575960 chr17:57771482-57771483(+) m6A 3'UTR//exon       - chr17:57771656-57771657(+) m6A 3'UTR//exon       26404942//27773535 chr17:57771679-57771680(+) m6A 3'UTR//exon       26404942//27773535 chr17:57771698-57771699(+) m6A 3'UTR//exon       26404942//27773535 chr17:57771764-57771765(+) m6A 3'UTR//exon       26404942 chr17:57771915-57771916(+) m6A 3'UTR//exon       27773535 chr17:57772013-57772014(+) Tm 3'UTR//exon       - chr17:57772047-57772048(+) m6A 3'UTR//exon       27773535 chr17:57772117-57772118(+) m6A 3'UTR//exon       27773535 chr17:57772173-57772174(+) m6A 3'UTR//exon       27773535 chr17:57772248-57772249(+) m6A 3'UTR//exon       27773535 chr17:57772258-57772259(+) m6A 3'UTR//exon       27773535 chr17:57772325-57772326(+) m6A 3'UTR//exon       27773535 chr17:57772422-57772423(+) m6A 3'UTR//exon       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CLTC	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Membrane HCC cell line (HepG2)     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus Colon cancer cells     24393600 Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-10a-3p
Interactor2: CLTC

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//Rep//Targetscan
Support Database	RepTar//ViRBase//VmiReg

References:

PMID	22100165	Target region	3'UTR
Source	RepTar//ViRBase//VmiReg	Interactor1 expression	None
Tissue or cell line	BC-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.