Basic Information:

  VIRBase ID:  

VHID00387727

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART20-5p:  MIMAT0003719          SKA2:  NM_001330399     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART20-5p	SKA2
miRBase Accession/Entrez ID	MIMAT0003719	348235
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	FAM33A

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SKA2	chr17:57222269(-) A-I      intronic chr17:57207068(-) A-I      intronic chr17:57207059(-) A-I      intronic chr17:57207016(-) A-I      intronic chr17:57207067(-) A-I      intronic chr17:57207002(-) A-I      intronic chr17:57206997(-) A-I      intronic chr17:57194906(-) A-I      intronic chr17:57194888(-) A-I      intronic chr17:57194850(-) A-I      intronic chr17:57194847(-) A-I      intronic chr17:57194371(-) A-I      intronic chr17:57194323(-) A-I      intronic chr17:57194901(-) A-I      intronic chr17:57206492(-) A-I      intronic chr17:57209604(-) A-I      intronic chr17:57214578(-) A-I      intronic chr17:57221002(-) A-I      intronic chr17:57193093(-) A-I      intronic chr17:57193052(-) A-I      intronic chr17:57212390(-) A-I      intronic chr17:57212789(-) A-I      intronic chr17:57213307(-) A-I      intronic chr17:57213399(-) A-I      intronic chr17:57215959(-) A-I      intronic chr17:57215963(-) A-I      intronic chr17:57215964(-) A-I      intronic chr17:57216035(-) A-I      intronic chr17:57216500(-) A-I      intronic chr17:57216554(-) A-I      intronic chr17:57216569(-) A-I      intronic chr17:57216732(-) A-I      intronic chr17:57220166(-) A-I      intronic chr17:57195391(-) A-I      intronic chr17:57195463(-) A-I      intronic chr17:57195527(-) A-I      intronic chr17:57197381(-) A-I      intronic chr17:57197398(-) A-I      intronic chr17:57197408(-) A-I      intronic chr17:57220194(-) A-I      intronic chr17:57220205(-) A-I      intronic chr17:57197447(-) A-I      intronic chr17:57220206(-) A-I      intronic chr17:57197449(-) A-I      intronic chr17:57194356(-) A-I      intronic chr17:57194455(-) A-I      intronic chr17:57194881(-) A-I      intronic chr17:57194985(-) A-I      intronic chr17:57194989(-) A-I      intronic chr17:57195036(-) A-I      intronic chr17:57195037(-) A-I      intronic chr17:57197450(-) A-I      intronic chr17:57197474(-) A-I      intronic chr17:57197506(-) A-I      intronic chr17:57199877(-) A-I      intronic chr17:57220871(-) A-I      intronic chr17:57220897(-) A-I      intronic chr17:57221061(-) A-I      intronic chr17:57221108(-) A-I      intronic chr17:57221256(-) A-I      intronic chr17:57221274(-) A-I      intronic chr17:57221351(-) A-I      intronic chr17:57221435(-) A-I      intronic chr17:57222409(-) A-I      intronic chr17:57224019(-) A-I      intronic chr17:57224053(-) A-I      intronic chr17:57224154(-) A-I      intronic chr17:57224227(-) A-I      intronic chr17:57224306(-) A-I      intronic chr17:57225734(-) A-I      intronic chr17:57225754(-) A-I      intronic chr17:57199799(-) A-I      intronic chr17:57226943(-) A-I      intronic chr17:57200293(-) A-I      intronic chr17:57200297(-) A-I      intronic chr17:57200298(-) A-I      intronic chr17:57193023(-) A-I      intronic chr17:57201002(-) A-I      intronic chr17:57201012(-) A-I      intronic chr17:57201625(-) A-I      intronic chr17:57201653(-) A-I      intronic chr17:57202362(-) A-I      intronic chr17:57202845(-) A-I      intronic chr17:57202850(-) A-I      intronic chr17:57202939(-) A-I      intronic chr17:57202949(-) A-I      intronic chr17:57203031(-) A-I      intronic chr17:57203041(-) A-I      intronic chr17:57203043(-) A-I      intronic chr17:57204694(-) A-I      intronic chr17:57204925(-) A-I      intronic chr17:57204926(-) A-I      intronic chr17:57204966(-) A-I      intronic chr17:57205794(-) A-I      intronic chr17:57205820(-) A-I      intronic chr17:57205839(-) A-I      intronic chr17:57205886(-) A-I      intronic chr17:57205910(-) A-I      intronic chr17:57206962(-) A-I      intronic chr17:57207052(-) A-I      intronic chr17:57207116(-) A-I      intronic chr17:57209529(-) A-I      intronic chr17:57209551(-) A-I      intronic chr17:57209862(-) A-I      intronic chr17:57195372(-) A-I      intronic chr17:57226817(-) A-I      intronic chr17:57195058(-) A-I      intronic chr17:57195061(-) A-I      intronic chr17:57220953(-) A-I      intronic chr17:57225779(-) A-I      intronic chr17:57210596(-) A-I      intronic chr17:57212334(-) A-I      intronic chr17:57212389(-) A-I      intronic chr17:57224109(-) A-I      intronic chr17:57209678(-) A-I      intronic chr17:57204861(-) A-I      intronic chr17:57225320(-) A-I      intronic chr17:57225098(-) A-I      intronic chr17:57224118(-) A-I      intronic chr17:57212957(-) A-I      intronic chr17:57224115(-) A-I      intronic chr17:57210512(-) A-I      intronic chr17:57201711(-) A-I      intronic chr17:57201681(-) A-I      intronic chr17:57216601(-) A-I      intronic chr17:57218538(-) A-I      intronic chr17:57222295(-) A-I      intronic chr17:57199754(-) A-I      intronic chr17:57225024(-) A-I      intronic chr17:57201061(-) A-I      intronic chr17:57194315(-) A-I      intronic chr17:57200035(-) A-I      intronic chr17:57201577(-) A-I      intronic chr17:57222296(-) A-I      intronic chr17:57227979(-) A-I      intronic chr17:57224437(-) A-I      intronic chr17:57193520(-) A-I      intronic chr17:57225844(-) A-I      intronic chr17:57225399(-) A-I      intronic chr17:57204871(-) A-I      intronic chr17:57201550(-) A-I      intronic chr17:57204661(-) A-I      intronic chr17:57201578(-) A-I      intronic chr17:57221369(-) A-I      intronic chr17:57225398(-) A-I      intronic chr17:57215952(-) A-I      intronic chr17:57218870(-) A-I      intronic chr17:57199968(-) A-I      intronic chr17:57204985(-) A-I      intronic chr17:57226151(-) A-I      intronic chr17:57224055(-) A-I      intronic chr17:57200676(-) A-I      intronic chr17:57224094(-) A-I      intronic chr17:57226942(-) A-I      intronic chr17:57194360(-) A-I      intronic chr17:57224060(-) A-I      intronic chr17:57204931(-) A-I      intronic chr17:57226748(-) A-I      intronic chr17:57221434(-) A-I      intronic chr17:57216600(-) A-I      intronic chr17:57226650(-) A-I      intronic chr17:57197888(-) A-I      intronic chr17:57213299(-) A-I      intronic chr17:57198324(-) A-I      intronic chr17:57200027(-) A-I      intronic chr17:57209917(-) A-I      intronic chr17:57223846(-) A-I      intronic chr17:57206615(-) A-I      intronic chr17:57207001(-) A-I      intronic chr17:57201038(-) A-I      intronic chr17:57201624(-) A-I      intronic chr17:57215966(-) A-I      intronic chr17:57200685(-) A-I      intronic chr17:57218194(-) A-I      intronic chr17:57223157(-) A-I      intronic chr17:57220729(-) A-I      intronic chr17:57210393(-) A-I      intronic chr17:57218902(-) A-I      intronic chr17:57223694(-) A-I      intronic chr17:57225450(-) A-I      intronic chr17:57204946(-) A-I      intronic chr17:57205943(-) A-I      intronic chr17:57213404(-) A-I      intronic chr17:57224101(-) A-I      intronic chr17:57225719(-) A-I      intronic chr17:57199824(-) A-I      intronic chr17:57209871(-) A-I      intronic chr17:57224164(-) A-I      intronic chr17:57207049(-) A-I      intronic chr17:57209595(-) A-I      intronic chr17:57210536(-) A-I      intronic chr17:57206529(-) A-I      intronic chr17:57206566(-) A-I      intronic chr17:57195614(-) A-I      intronic chr17:57202602(-) A-I      intronic chr17:57213324(-) A-I      intronic chr17:57216636(-) A-I      intronic chr17:57201698(-) A-I      intronic chr17:57220858(-) A-I      intronic chr17:57220277(-) A-I      intronic chr17:57199692(-) A-I      intronic chr17:57224419(-) A-I      intronic chr17:57201779(-) A-I      intronic chr17:57204928(-) A-I      intronic chr17:57227532(-) A-I      intronic chr17:57221516(-) A-I      intronic chr17:57225918(-) A-I      intronic chr17:57209828(-) A-I      intronic chr17:57200752(-) A-I      intronic chr17:57199850(-) A-I      intronic chr17:57213587(-) A-I      intronic chr17:57223852(-) A-I      intronic chr17:57200128(-) A-I      intronic chr17:57201048(-) A-I      intronic chr17:57210502(-) A-I      intronic chr17:57203011(-) A-I      intronic chr17:57225793(-) A-I      intronic chr17:57212732(-) A-I      intronic chr17:57224320(-) A-I      intronic chr17:57223132(-) A-I      intronic chr17:57226770(-) A-I      intronic chr17:57226052(-) A-I      intronic chr17:57202431(-) A-I      intronic chr17:57202400(-) A-I      intronic chr17:57214194(-) A-I      intronic chr17:57200738(-) A-I      intronic chr17:57220831(-) A-I      intronic chr17:57227991(-) A-I      intronic chr17:57223156(-) A-I      intronic chr17:57218869(-) A-I      intronic chr17:57205900(-) A-I      intronic chr17:57226815(-) A-I      intronic chr17:57222438(-) A-I      intronic chr17:57218257(-) A-I      intronic chr17:57224436(-) A-I      intronic chr17:57207883(-) A-I      intronic chr17:57226651(-) A-I      intronic chr17:57223282(-) A-I      intronic chr17:57204951(-) A-I      intronic chr17:57221417(-) A-I      intronic chr17:57190543(-) A-I      intronic chr17:57199848(-) A-I      intronic chr17:57224456(-) A-I      intronic chr17:57212727(-) A-I      intronic chr17:57200291(-) A-I      intronic chr17:57200317(-) A-I      intronic chr17:57218585(-) A-I      intronic chr17:57206627(-) A-I      intronic chr17:57201560(-) A-I      intronic chr17:57210476(-) A-I      intronic chr17:57218032(-) A-I      intronic chr17:57202407(-) A-I      intronic chr17:57216524(-) A-I      intronic chr17:57198257(-) A-I      intronic chr17:57220866(-) A-I      intronic chr17:57197434(-) A-I      intronic chr17:57214652(-) A-I      intronic chr17:57220928(-) A-I      intronic chr17:57204942(-) A-I      intronic chr17:57220703(-) A-I      intronic chr17:57223093(-) A-I      intronic chr17:57199806(-) A-I      intronic chr17:57218503(-) A-I      intronic chr17:57218279(-) A-I      intronic chr17:57213820(-) A-I      intronic chr17:57218861(-) A-I      intronic chr17:57204927(-) A-I      intronic chr17:57231271(-) A-I      intronic chr17:57218437(-) A-I      intronic chr17:57225473(-) A-I      intronic chr17:57224277(-) A-I      intronic chr17:57222431(-) A-I      intronic chr17:57220076(-) A-I      intronic chr17:57204847(-) A-I      intronic chr17:57194357(-) A-I      intronic chr17:57210535(-) A-I      intronic chr17:57197855(-) A-I      intronic chr17:57205020(-) A-I      intronic chr17:57200989(-) A-I      intronic chr17:57212775(-) A-I      intronic chr17:57231300(-) A-I      intronic chr17:57225474(-) A-I      intronic chr17:57222410(-) A-I      intronic chr17:57198346(-) A-I      intronic chr17:57224150(-) A-I      intronic chr17:57213294(-) A-I      intronic chr17:57205865(-) A-I      intronic chr17:57199617(-) A-I      intronic chr17:57212774(-) A-I      intronic chr17:57202978(-) A-I      intronic chr17:57226134(-) A-I      intronic chr17:57199584(-) A-I      intronic chr17:57200770(-) A-I      intronic chr17:57224326(-) A-I      intronic chr17:57216502(-) A-I      intronic chr17:57219820(-) A-I      intronic chr17:57223777(-) A-I      intronic chr17:57218836(-) A-I      intronic chr17:57222289(-) A-I      intronic chr17:57222322(-) A-I      intronic chr17:57206570(-) A-I      intronic chr17:57210595(-) A-I      intronic chr17:57200148(-) A-I      intronic chr17:57220693(-) A-I      intronic chr17:57199664(-) A-I      intronic chr17:57204846(-) A-I      intronic chr17:57212893(-) A-I      intronic chr17:57224123(-) A-I      intronic chr17:57225341(-) A-I      intronic chr17:57200959(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	SKA2	chr17:57194315(-) A-I intron -    22327324 chr17:57210502(-) A-I intron -    22327324 chr17:57199707(-) T-C intron -    22484847 chr17:57201779(-) A-G intron -    22484847 chr17:57210502(-) A-G intron -    22484847 chr17:57210512(-) A-G intron -    22484847 chr17:57223157(-) A-G intron -    22484847 chr17:57225918(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SKA2	chr17:57187332-57187333(-) m6A 3'UTR       27773535 chr17:57187377-57187378(-) m6A 3'UTR       27773535 chr17:57187440-57187441(-) m6A 3'UTR       27773535 chr17:57189218-57189219(-) m6A 3'UTR       27773535 chr17:57189628-57189629(-) m6A 3'UTR//exon       24284625//24981863//27773535//27371828//22608085 chr17:57189678-57189679(-) m6A 3'UTR//CDS//exon       24284625//24981863//27773535//27371828//22608085 chr17:57196690-57196691(-) m6A 3'UTR//CDS//intron       24284625//24981863//27773535//27371828//22608085 chr17:57196703-57196704(-) m6A 3'UTR//CDS//intron       24284625//24981863//27773535//27371828//22608085 chr17:57196723-57196724(-) m6A 3'UTR//CDS//intron       24981863//27773535//22608085 chr17:57196781-57196782(-) m6A 3'UTR//CDS//intron       27773535 chr17:57196801-57196802(-) m6A 3'UTR//CDS//intron       27773535 chr17:57206800-57206801(-) Gm intron       16381836 chr17:57208667-57208668(-) m6A CDS//intron       24209618//24981863 chr17:57229153-57229154(-) m6A 5'UTR//intron       24209618//24981863 chr17:57232325-57232326(-) m6A CDS//intron       24209618//24981863 chr17:57232383-57232384(-) m6A CDS//intron       24284625//24209618//24981863 chr17:57232404-57232405(-) m6A CDS//intron       24284625//24209618//24981863 chr17:57232497-57232498(-) m6A 5'UTR//CDS//exon       24284625//24209618//24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	SKA2	Chromatin K562 cells     - Cytosol HCC cell line (HepG2)|HeLa-S3 cells     - Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HeLa-S3 cells|K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART20-5p
Interactor2: SKA2

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//PITA//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.