Basic Information:

  VIRBase ID:  

VHID00423136

  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          CALM3:  NM_001329925     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-10a-3p	CALM3
miRBase Accession/Entrez ID	MIMAT0002179	808
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	CALM//CaM//CAM1//CAM2//CAMB//CaMIII//CPVT6//HEL-S-72//LQT16//PHKD//PHKD3

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CALM3	chr19:47104386-47104387(+) m6A 5'UTR       24981863 chr19:47104540-47104541(+) m6A 5'UTR//intron       24209618//24981863 chr19:47104623-47104624(+) m6A 5'UTR//exon//intron       24209618//24981863//22575960 chr19:47104653-47104654(+) m6A 5'UTR//exon//intron       24209618//24981863//22575960 chr19:47104674-47104675(+) m6A 5'UTR//exon//intron       24209618//24981863//22575960 chr19:47108532-47108533(+) m6A exon//intron       - chr19:47111318-47111319(+) m6A exon//intron       27371828 chr19:47111350-47111351(+) m6A exon//intron       27371828 chr19:47111415-47111416(+) m6A exon//intron       27371828//22575960 chr19:47111521-47111522(+) m6A 5'UTR//CDS//exon       24981863//26404942//27773535//22575960 chr19:47111541-47111542(+) m6A CDS//exon       24981863//26404942//27773535//22575960 chr19:47111546-47111547(+) m6A CDS//exon       24981863//26404942//27773535//22575960 chr19:47111746-47111747(+) m6A CDS//exon//intron       24981863//26404942//27773535//22575960 chr19:47111795-47111796(+) m6A CDS//exon//intron       24981863//26404942//27773535//22575960 chr19:47111801-47111802(+) m6A CDS//exon//intron       24981863//26404942//27773535//22575960 chr19:47111802-47111803(+) Cm CDS//exon//intron       - chr19:47111812-47111813(+) Gm CDS//exon//intron       - chr19:47111876-47111877(+) m6A exon//intron       24981863//26404942//27773535//22575960 chr19:47111898-47111899(+) m6A exon//intron       24981863//27773535//22575960 chr19:47111907-47111908(+) m6A exon//intron       24981863//27773535//22575960 chr19:47112151-47112152(+) m6A CDS//exon//intron       24209618//24981863//26404942//27773535//22575960 chr19:47112510-47112511(+) m6A 3'UTR//exon       24284625//24209618//24981863//27773535//22608085 chr19:47112811-47112812(+) m6A 3'UTR//exon       24284625//24209618//22575960//22608085 chr19:47112825-47112826(+) m6A 3'UTR//exon       24284625//24209618//22575960//22608085 chr19:47112951-47112952(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr19:47113031-47113032(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//27371828//22575960//22608085 chr19:47113076-47113077(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr19:47113114-47113115(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr19:47113143-47113144(+) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//26404942//27773535//22575960//22608085 chr19:47113328-47113329(+) m6A 3'UTR//exon       24284625//24209618//26404942//22575960 chr19:47113346-47113347(+) m6A 3'UTR//exon       24284625//26404942//22575960 chr19:47113425-47113426(+) m6A 3'UTR//exon       24284625//26404942//22575960 chr19:47113645-47113646(+) m6A 3'UTR//exon       24284625//27371828//22575960 chr19:47113793-47113794(+) m6A 3'UTR//exon       - chr19:47113876-47113877(+) m6A 3'UTR//exon       26404942//27773535//22575960 chr19:47113923-47113924(+) m6A 3'UTR//exon       27773535//22575960 chr19:47113958-47113959(+) m6A 3'UTR//exon       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CALM3	Chromatin K562 cells     - Cytosol HeLa-S3 cells     - Exosome Blood     - Nucleus K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-10a-3p
Interactor2: CALM3

Evidence Support:

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