Basic Information:

  VIRBase ID:  

VHID00308614

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART5-5p:  MIMAT0003413          SMAD3:  NM_005902     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART5-5p	SMAD3
miRBase Accession/Entrez ID	MIMAT0003413	4088
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	HSPC193//HsT17436//JV15-2//LDS1C//LDS3//MADH3

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SMAD3	chr15:67452930(+) A-I      intronic chr15:67452962(+) A-I      intronic chr15:67358882(+) A-I      intronic chr15:67451670(+) A-I      intronic chr15:67451671(+) A-I      intronic chr15:67452947(+) A-I      intronic chr15:67394254(+) A-I      intronic chr15:67451683(+) A-I      intronic chr15:67451672(+) A-I      intronic chr15:67452950(+) A-I      intronic chr15:67394253(+) A-I      intronic chr15:67362173(+) A-I      intronic chr15:67403460(+) A-I      intronic chr15:67451592(+) A-I      intronic chr15:67451581(+) A-I      intronic chr15:67451570(+) A-I      intronic chr15:67416609(+) A-I      intronic chr15:67416603(+) A-I      intronic chr15:67416411(+) A-I      intronic chr15:67416365(+) A-I      intronic chr15:67416349(+) A-I      intronic chr15:67415758(+) A-I      intronic chr15:67389768(+) A-I      intronic chr15:67389769(+) A-I      intronic chr15:67415506(+) A-I      intronic chr15:67415445(+) A-I      intronic chr15:67415389(+) A-I      intronic chr15:67367127(+) A-I      intronic chr15:67452943(+) A-I      intronic chr15:67456585(+) A-I      intronic chr15:67412396(+) A-I      intronic chr15:67456466(+) A-I      intronic chr15:67389771(+) A-I      intronic chr15:67368181(+) A-I      intronic chr15:67456616(+) A-I      intronic chr15:67456372(+) A-I      intronic chr15:67412356(+) A-I      intronic chr15:67456581(+) A-I      intronic chr15:67405627(+) A-I      intronic chr15:67366170(+) A-I      intronic chr15:67456546(+) A-I      intronic chr15:67392319(+) A-I      intronic chr15:67412179(+) A-I      intronic chr15:67456542(+) A-I      intronic chr15:67456516(+) A-I      intronic chr15:67456471(+) A-I      intronic chr15:67456470(+) A-I      intronic chr15:67368088(+) A-I      intronic chr15:67366112(+) A-I      intronic chr15:67389693(+) A-I      intronic chr15:67367131(+) A-I      intronic chr15:67367102(+) A-I      intronic chr15:67367157(+) A-I      intronic chr15:67455501(+) A-I      intronic chr15:67366211(+) A-I      intronic chr15:67366195(+) A-I      intronic chr15:67366149(+) A-I      intronic chr15:67366142(+) A-I      intronic chr15:67366113(+) A-I      intronic chr15:67410310(+) A-I      intronic chr15:67455495(+) A-I      intronic chr15:67368114(+) A-I      intronic chr15:67455405(+) A-I      intronic chr15:67455376(+) A-I      intronic chr15:67453054(+) A-I      intronic chr15:67412228(+) A-I      intronic chr15:67453053(+) A-I      intronic chr15:67453034(+) A-I      intronic chr15:67453018(+) A-I      intronic chr15:67415675(+) A-I      intronic chr15:67368202(+) A-I      intronic chr15:67366106(+) A-I      intronic chr15:67366069(+) A-I      intronic chr15:67366061(+) A-I      intronic chr15:67453015(+) A-I      intronic chr15:67415386(+) A-I      intronic chr15:67453011(+) A-I      intronic chr15:67452994(+) A-I      intronic chr15:67452958(+) A-I      intronic chr15:67452927(+) A-I      intronic chr15:67452894(+) A-I      intronic chr15:67452891(+) A-I      intronic chr15:67452855(+) A-I      intronic chr15:67452839(+) A-I      intronic chr15:67415717(+) A-I      intronic chr15:67451509(+) A-I      intronic chr15:67451652(+) A-I      intronic chr15:67451609(+) A-I      intronic chr15:67451606(+) A-I      intronic chr15:67456143(+) A-I      intronic chr15:67410283(+) A-I      intronic chr15:67412332(+) A-I      intronic chr15:67451478(+) A-I      intronic chr15:67412397(+) A-I      intronic chr15:67367047(+) A-I      intronic chr15:67368106(+) A-I      intronic chr15:67363921(+) A-I      intronic chr15:67455555(+) A-I      intronic chr15:67416500(+) A-I      intronic chr15:67455512(+) A-I      intronic chr15:67367189(+) A-I      intronic chr15:67415375(+) A-I      intronic chr15:67415739(+) A-I      intronic chr15:67415579(+) A-I      intronic chr15:67443457(+) A-I      intronic chr15:67415685(+) A-I      intronic chr15:67368133(+) A-I      intronic chr15:67368119(+) A-I      intronic chr15:67452882(+) A-I      intronic chr15:67368174(+) A-I      intronic chr15:67367193(+) A-I      intronic chr15:67416427(+) A-I      intronic chr15:67366220(+) A-I      intronic chr15:67416492(+) A-I      intronic chr15:67362144(+) A-I      intronic chr15:67367097(+) A-I      intronic chr15:67476581(+) A-I      intronic chr15:67368185(+) A-I      intronic chr15:67415373(+) A-I      intronic chr15:67415687(+) A-I      intronic chr15:67410410(+) A-I      intronic chr15:67362114(+) A-I      intronic chr15:67421012(+) A-I      intronic chr15:67410364(+) A-I      intronic chr15:67455333(+) A-I      intronic chr15:67368100(+) A-I      intronic chr15:67416601(+) A-I      intronic chr15:67410351(+) A-I      intronic chr15:67452978(+) A-I      intronic chr15:67415787(+) A-I      intronic chr15:67405710(+) A-I      intronic chr15:67455441(+) A-I      intronic chr15:67366158(+) A-I      intronic chr15:67368198(+) A-I      intronic chr15:67455332(+) A-I      intronic chr15:67368203(+) A-I      intronic chr15:67363962(+) A-I      intronic chr15:67415671(+) A-I      intronic chr15:67415676(+) A-I      intronic chr15:67405711(+) A-I      intronic chr15:67405702(+) A-I      intronic chr15:67368210(+) A-I      intronic chr15:67416395(+) A-I      intronic chr15:67416561(+) A-I      intronic chr15:67415408(+) A-I      intronic chr15:67415680(+) A-I      intronic chr15:67368146(+) A-I      intronic chr15:67410342(+) A-I      intronic chr15:67416562(+) A-I      intronic chr15:67456395(+) A-I      intronic chr15:67362119(+) A-I      intronic chr15:67478497(+) A-I      intronic chr15:67368044(+) A-I      intronic chr15:67452949(+) A-I      intronic chr15:67363875(+) A-I      intronic chr15:67483483(+) A-I      3'UTR

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	SMAD3	chr15:67368146(+) A-G intron -    22484847 chr15:67415675(+) A-G intron -    22484847 chr15:67451478(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SMAD3	chr15:67356224-67356225(+) m6A 5'UTR       24981863 chr15:67356275-67356276(+) m6A 5'UTR       24981863 chr15:67358549-67358550(+) m1A CDS//intron       26863196//26863410 chr15:67358614-67358615(+) m6A CDS//intron       24284625//24981863//26404942 chr15:67390932-67390933(+) m6A 5'UTR//intron       24284625 chr15:67418223-67418224(+) m6A 5'UTR//intron       24981863 chr15:67457312-67457313(+) m6A 5'UTR//CDS//exon       24284625 chr15:67457419-67457420(+) m6A CDS//exon       24284625//24981863 chr15:67457677-67457678(+) m6A CDS//exon       24284625//24981863 chr15:67459093-67459094(+) m6A 5'UTR//intron       24284625//24981863 chr15:67459118-67459119(+) m6A 5'UTR//CDS//exon       24284625//24981863 chr15:67459154-67459155(+) m6A 5'UTR//CDS//exon       24284625//24981863//26404942 chr15:67459173-67459174(+) m6A CDS//exon       24284625//24981863//26404942 chr15:67462900-67462901(+) m6A CDS//exon       24284625//24981863//26404942 chr15:67462971-67462972(+) m6A exon//intron       24284625//24981863 chr15:67466703-67466704(+) m6A exon//intron       24284625 chr15:67466805-67466806(+) m6A exon//intron       24284625 chr15:67473784-67473785(+) Cm CDS//intron       - chr15:67482753-67482754(+) m6A CDS//exon//intron       24284625//24209618//24981863 chr15:67482876-67482877(+) m6A 3'UTR//exon//intron       24284625//24209618//24981863//26404942//27773535//22608085 chr15:67482943-67482944(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr15:67483023-67483024(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr15:67483035-67483036(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr15:67483056-67483057(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr15:67483073-67483074(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483144-67483145(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483180-67483181(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483229-67483230(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483246-67483247(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483310-67483311(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483358-67483359(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483405-67483406(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483430-67483431(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483480-67483481(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483512-67483513(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483525-67483526(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483562-67483563(+) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67483916-67483917(+) m6A 3'UTR//intron       24284625//24981863 chr15:67483927-67483928(+) m6A 3'UTR//intron       24284625//24981863 chr15:67484050-67484051(+) m6A 3'UTR//intron       26404942 chr15:67484252-67484253(+) m6A 3'UTR//intron       24209618//24981863//26404942 chr15:67484320-67484321(+) m6A 3'UTR//intron       24209618//24981863//26404942 chr15:67484329-67484330(+) m6A 3'UTR//intron       24981863//26404942 chr15:67484334-67484335(+) m6A 3'UTR//intron       24981863//26404942 chr15:67484616-67484617(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085 chr15:67484642-67484643(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67484675-67484676(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67484712-67484713(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67484720-67484721(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67484730-67484731(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67484830-67484831(+) m6A 3'UTR//intron       24284625//24209618//24981863//26404942//22575960//22608085 chr15:67484870-67484871(+) m6A 3'UTR//intron       24284625//24209618 chr15:67484878-67484879(+) m6A 3'UTR//intron       24284625//24209618 chr15:67485027-67485028(+) m6A 3'UTR//intron       24981863 chr15:67485134-67485135(+) m6A 3'UTR//intron       24981863//26404942 chr15:67485187-67485188(+) m6A 3'UTR//intron       24981863//26404942 chr15:67485202-67485203(+) m6A 3'UTR//intron       24981863//26404942 chr15:67485289-67485290(+) m6A 3'UTR//exon       26404942 chr15:67485323-67485324(+) m6A 3'UTR//exon       26404942 chr15:67485510-67485511(+) m6A 3'UTR//exon       26404942 chr15:67485525-67485526(+) m6A 3'UTR       26404942 chr15:67485548-67485549(+) m6A 3'UTR       26404942 chr15:67485684-67485685(+) m6A 3'UTR       24981863 chr15:67485711-67485712(+) m6A 3'UTR       24981863 chr15:67485871-67485872(+) m6A 3'UTR       24284625 chr15:67485909-67485910(+) m6A 3'UTR       24284625 chr15:67485924-67485925(+) m6A 3'UTR       24284625 chr15:67485951-67485952(+) m6A 3'UTR       24284625 chr15:67486071-67486072(+) m6A 3'UTR       26404942 chr15:67486164-67486165(+) m6A 3'UTR       26404942 chr15:67486385-67486386(+) m6A 3'UTR       24284625//25456834//24981863//26404942//22575960//22608085 chr15:67486439-67486440(+) m6A 3'UTR       24284625//25456834//24981863//26404942//22575960//22608085 chr15:67486513-67486514(+) m6A 3'UTR       24284625//24981863//26404942 chr15:67486518-67486519(+) m6A 3'UTR       24284625//24981863//26404942 chr15:67486677-67486678(+) m6A 3'UTR       24209618//24981863//26404942//22608085 chr15:67486744-67486745(+) m6A 3'UTR       24284625//24209618//24981863//26404942//22608085 chr15:67486762-67486763(+) m6A 3'UTR       24284625//24209618//24981863//26404942//22608085 chr15:67486784-67486785(+) m6A 3'UTR       24209618//24981863//26404942//22608085 chr15:67486799-67486800(+) m6A 3'UTR       24209618//24981863//26404942//22608085 chr15:67486908-67486909(+) m6A 3'UTR       24284625//24981863//26404942 chr15:67486917-67486918(+) m6A 3'UTR       24284625//24981863//26404942 chr15:67486972-67486973(+) m6A 3'UTR       24284625//25456834//24981863//26404942//22608085 chr15:67487053-67487054(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//22608085 chr15:67487060-67487061(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//22608085 chr15:67487074-67487075(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//22608085 chr15:67487094-67487095(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67487142-67487143(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//22575960//22608085 chr15:67487253-67487254(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr15:67487285-67487286(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	SMAD3	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)     - Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART5-5p
Interactor2: SMAD3

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//Rep//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	Interactor2 expression	Downregulation
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.