Basic Information:

  VIRBase ID:  

VHID00423772

  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          SEC62:  NM_003262     

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Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-10a-3p	SEC62
miRBase Accession/Entrez ID	MIMAT0002179	7095
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	Dtrp1//HTP1//TLOC1//TP-1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SEC62	chr3:169705103(+) A-I      intronic chr3:169703099(+) A-I      intronic chr3:169692819(+) A-I      intronic chr3:169705086(+) A-I      intronic chr3:169690477(+) A-I      intronic chr3:169691310(+) A-I      intronic chr3:169704650(+) A-I      intronic chr3:169709125(+) A-I      intronic chr3:169709322(+) A-I      intronic chr3:169709416(+) A-I      intronic chr3:169709461(+) A-I      intronic chr3:169690333(+) A-I      intronic chr3:169705135(+) A-I      intronic chr3:169705029(+) A-I      intronic chr3:169705080(+) A-I      intronic chr3:169707067(+) A-I      intronic chr3:169690468(+) A-I      intronic chr3:169691211(+) A-I      intronic chr3:169688902(+) A-I      intronic chr3:169692854(+) A-I      intronic chr3:169693014(+) A-I      intronic chr3:169696330(+) A-I      intronic chr3:169688890(+) A-I      intronic chr3:169709117(+) A-I      intronic chr3:169693044(+) A-I      intronic chr3:169704636(+) A-I      intronic chr3:169704679(+) A-I      intronic chr3:169689121(+) A-I      intronic chr3:169709299(+) A-I      intronic chr3:169705127(+) A-I      intronic chr3:169709163(+) A-I      intronic chr3:169692849(+) A-I      intronic chr3:169707144(+) A-I      intronic chr3:169696259(+) A-I      intronic chr3:169689027(+) A-I      intronic chr3:169705096(+) A-I      intronic chr3:169691271(+) A-I      intronic chr3:169709095(+) A-I      intronic chr3:169688998(+) A-I      intronic chr3:169689072(+) A-I      intronic chr3:169690398(+) A-I      intronic chr3:169709381(+) A-I      intronic chr3:169689001(+) A-I      intronic chr3:169707959(+) A-I      intronic chr3:169704559(+) A-I      intronic chr3:169708002(+) A-I      intronic chr3:169691195(+) A-I      intronic chr3:169692814(+) A-I      intronic chr3:169691230(+) A-I      intronic chr3:169709144(+) A-I      intronic chr3:169691244(+) A-I      intronic chr3:169704973(+) A-I      intronic chr3:169692949(+) A-I      intronic chr3:169690451(+) A-I      intronic chr3:169692805(+) A-I      intronic chr3:169705157(+) A-I      intronic chr3:169704653(+) A-I      intronic chr3:169705126(+) A-I      intronic chr3:169705092(+) A-I      intronic chr3:169705162(+) A-I      intronic chr3:169690490(+) A-I      intronic chr3:169693927(+) A-I      intronic chr3:169691194(+) A-I      intronic chr3:169706956(+) A-I      intronic chr3:169688910(+) A-I      intronic chr3:169705122(+) A-I      intronic chr3:169704643(+) A-I      intronic chr3:169688974(+) A-I      intronic chr3:169707021(+) A-I      intronic chr3:169704765(+) A-I      intronic chr3:169691331(+) A-I      intronic chr3:169690450(+) A-I      intronic chr3:169704735(+) A-I      intronic chr3:169710159(+) A-I      intronic chr3:169706961(+) A-I      intronic chr3:169691405(+) A-I      intronic chr3:169692971(+) A-I      intronic chr3:169689068(+) A-I      intronic chr3:169710164(+) A-I      intronic chr3:169689083(+) A-I      intronic chr3:169707062(+) A-I      intronic chr3:169690478(+) A-I      intronic chr3:169692904(+) A-I      intronic chr3:169709425(+) A-I      intronic chr3:169705006(+) A-I      intronic chr3:169705024(+) A-I      intronic chr3:169704724(+) A-I      intronic chr3:169690303(+) A-I      intronic chr3:169689022(+) A-I      intronic chr3:169704628(+) A-I      intronic chr3:169705016(+) A-I      intronic chr3:169704631(+) A-I      intronic chr3:169688976(+) A-I      intronic chr3:169704579(+) A-I      intronic chr3:169709096(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	SEC62	chr3:169687346(+) A-I intron -    15342557 chr3:169688035(+) A-I intron -    15342557 chr3:169688910(+) A-I intron -    15342557 chr3:169688936(+) A-I intron -    15342557 chr3:169688998(+) A-I intron -    15342557 chr3:169689001(+) A-I intron -    15342557 chr3:169689083(+) A-I intron -    15342557   //22327324 chr3:169690398(+) A-I intron -    15342557 chr3:169690652(+) A-I intron -    15342557 chr3:169692849(+) A-I intron -    15342557 chr3:169690450(+) A-I intron -    21960545   //22327324 chr3:169691271(+) A-I intron -    22327324 chr3:169704559(+) A-I intron -    21960545   //22327324 chr3:169704614(+) A-I intron -    22327324 chr3:169705024(+) A-I intron -    22327324 chr3:169690303(+) A-I intron -    21960545 chr3:169704653(+) A-I intron -    21960545 chr3:169704655(+) A-I intron -    21960545 chr3:169709095(+) A-I intron -    21960545 chr3:169709096(+) A-I intron -    21960545 chr3:169688910(+) A-G intron -    22484847 chr3:169688936(+) A-G intron -    22484847 chr3:169688974(+) A-G intron -    22484847 chr3:169688976(+) A-G intron -    22484847 chr3:169688977(+) A-G intron -    22484847 chr3:169688998(+) A-G intron -    22484847 chr3:169689068(+) A-G intron -    22484847 chr3:169689072(+) A-G intron -    22484847 chr3:169689083(+) A-G intron -    22484847 chr3:169689118(+) C-T intron -    22484847 chr3:169689121(+) A-G intron -    22484847 chr3:169690316(+) A-G intron -    22484847 chr3:169690398(+) A-G intron -    22484847 chr3:169690450(+) A-G intron -    22484847 chr3:169690451(+) A-G intron -    22484847 chr3:169690478(+) A-G intron -    22484847 chr3:169691194(+) A-G intron -    22484847 chr3:169691195(+) A-G intron -    22484847 chr3:169691201(+) A-G intron -    22484847 chr3:169691244(+) A-G intron -    22484847 chr3:169691271(+) A-G intron -    22484847 chr3:169691287(+) A-T intron -    22484847 chr3:169691331(+) A-G intron -    22484847 chr3:169692814(+) A-G intron -    22484847 chr3:169692849(+) A-G intron -    22484847 chr3:169692904(+) A-G intron -    22484847 chr3:169692919(+) A-G intron -    22484847 chr3:169704559(+) A-G intron -    22484847 chr3:169704614(+) A-G intron -    22484847 chr3:169704628(+) A-G intron -    22484847 chr3:169704631(+) A-G intron -    22484847 chr3:169704653(+) A-G intron -    22484847 chr3:169704655(+) A-G intron -    22484847 chr3:169704973(+) A-G intron -    22484847 chr3:169705006(+) A-G intron -    22484847 chr3:169705015(+) A-G intron -    22484847 chr3:169705024(+) A-G intron -    22484847 chr3:169705092(+) A-G intron -    22484847 chr3:169705096(+) A-G intron -    22484847 chr3:169705126(+) A-G intron -    22484847 chr3:169705127(+) A-G intron -    22484847 chr3:169705157(+) A-G intron -    22484847 chr3:169705162(+) A-G intron -    22484847 chr3:169706951(+) A-G intron -    22484847 chr3:169706999(+) A-G intron -    22484847 chr3:169709096(+) A-G intron -    22484847 chr3:169709143(+) A-G intron -    22484847 chr3:169709315(+) A-G intron -    22484847 chr3:169709381(+) A-G intron -    22484847 chr3:169709425(+) A-G intron -    22484847 chr3:169710164(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SEC62	chr3:169684591-169684592(+) m6A 5'UTR//exon       25456834//24981863 chr3:169684627-169684628(+) m6A CDS//exon       24209618//25456834//24981863//27773535 chr3:169686209-169686210(+) m6A exon//intron       24209618//25456834//24981863//27773535 chr3:169686220-169686221(+) m6A exon//intron       24209618//24981863//27773535 chr3:169693406-169693407(+) m6A 3'UTR//CDS//exon       - chr3:169694748-169694749(+) m6A 3'UTR//CDS//exon       27773535 chr3:169700556-169700557(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169700604-169700605(+) m1A 3'UTR//CDS//exon       26863196 chr3:169700645-169700646(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169700954-169700955(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169700963-169700964(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169700981-169700982(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169700998-169700999(+) m6A 3'UTR//CDS//exon       24981863//27773535//22608085 chr3:169702946-169702947(+) m6A exon//intron       - chr3:169702969-169702970(+) m6A exon//intron       - chr3:169703628-169703629(+) m6A 3'UTR//CDS//exon       - chr3:169710514-169710515(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr3:169710525-169710526(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr3:169710551-169710552(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085 chr3:169710591-169710592(+) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr3:169710628-169710629(+) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr3:169710644-169710645(+) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr3:169710675-169710676(+) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr3:169710681-169710682(+) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr3:169710760-169710761(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr3:169710766-169710767(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr3:169710773-169710774(+) m6A CDS       24284625//24209618//25456834//24981863//27773535//22575960//22608085 chr3:169710821-169710822(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr3:169710867-169710868(+) m6A 3'UTR       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr3:169710897-169710898(+) Y 3'UTR//intron       26075521 chr3:169710924-169710925(+) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr3:169711182-169711183(+) m6A 3'UTR//intron       26404942 chr3:169711208-169711209(+) m6A 3'UTR//intron       26404942 chr3:169711216-169711217(+) m6A 3'UTR//intron       26404942 chr3:169711279-169711280(+) m6A 3'UTR//intron       26404942 chr3:169711715-169711716(+) m6A 3'UTR       26404942 chr3:169711785-169711786(+) m6A 3'UTR       27773535 chr3:169711802-169711803(+) m6A 3'UTR       27773535 chr3:169711886-169711887(+) m6A 3'UTR       27773535 chr3:169712100-169712101(+) Y 3'UTR       26075521

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	SEC62	Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol HCC cell line (HepG2)     - Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus HCC cell line (HepG2)     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-10a-3p
Interactor2: SEC62

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//BC-3 cells//BJAB 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.