Basic Information:

  VIRBase ID:  

VHID00443908

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-9-5p:  MIMAT0002184          CCDC50:  NM_178335     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-9-5p	CCDC50
miRBase Accession/Entrez ID	MIMAT0002184	152137
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	C3orf6//DFNA44//YMER

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	CCDC50	chr3:191110237(+) A-I      3'UTR chr3:191110668(+) A-I      3'UTR

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	CCDC50	chr3:191055259(+) G-A intron -    22484847 chr3:191081863(+) A-T intron -    22484847 chr3:191088286(+) T-G intron -    22484847 chr3:191088287(+) G-T intron -    22484847 chr3:191110789(+) G-A intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	CCDC50	chr3:191047039-191047040(+) m6A 5'UTR       24981863 chr3:191047103-191047104(+) m6A 5'UTR       24981863 chr3:191047279-191047280(+) m6A 5'UTR       24981863 chr3:191075909-191075910(+) m6A CDS       24981863//27773535 chr3:191078860-191078861(+) m6A CDS       24981863//27773535 chr3:191078868-191078869(+) m6A CDS       24981863//27773535 chr3:191087763-191087764(+) m6A CDS//exon       24981863//27773535//22608085 chr3:191087862-191087863(+) m6A exon//intron       24981863//27773535 chr3:191087875-191087876(+) m6A exon//intron       24981863//27773535 chr3:191087912-191087913(+) m6A exon//intron       27773535 chr3:191092899-191092900(+) m6A CDS//intron       25456834//22608085 chr3:191092908-191092909(+) m6A CDS//intron       25456834//22608085 chr3:191092927-191092928(+) m6A CDS//intron       25456834//24981863//22608085 chr3:191092950-191092951(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191092956-191092957(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191092970-191092971(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191092986-191092987(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093042-191093043(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093106-191093107(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093167-191093168(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093185-191093186(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093202-191093203(+) m6A CDS//intron       24284625//25456834//24981863//22608085 chr3:191093285-191093286(+) m6A CDS//intron       25456834//24981863//22608085 chr3:191093316-191093317(+) m6A CDS//intron       25456834//24981863//22608085 chr3:191093329-191093330(+) m6A CDS//intron       25456834//24981863//22608085 chr3:191098041-191098042(+) m6A CDS       24981863//27773535 chr3:191098056-191098057(+) m6A CDS       24981863//27773535 chr3:191098488-191098489(+) m6A CDS       24981863//27773535 chr3:191098692-191098693(+) m6A CDS       24981863//27773535 chr3:191098707-191098708(+) m6A CDS       24981863//27773535 chr3:191100540-191100541(+) m6A CDS       24981863//27773535 chr3:191100581-191100582(+) m6A CDS       24981863//27773535 chr3:191107340-191107341(+) m6A CDS       24981863//27773535//22608085 chr3:191109542-191109543(+) m6A CDS       24981863//27773535//22608085 chr3:191109551-191109552(+) m6A 3'UTR       24981863//27773535//22608085 chr3:191109576-191109577(+) m6A 3'UTR       24981863//27773535//22608085 chr3:191109809-191109810(+) m6A 3'UTR       27773535 chr3:191109819-191109820(+) m6A 3'UTR       27773535 chr3:191109910-191109911(+) m6A 3'UTR       27773535 chr3:191113376-191113377(+) m6A 3'UTR       24981863//22608085 chr3:191113391-191113392(+) m6A 3'UTR       24981863//22608085 chr3:191113408-191113409(+) m6A 3'UTR       24981863//22608085 chr3:191113472-191113473(+) m6A 3'UTR       22608085

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	CCDC50	Chromatin K562 cells     - Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     - Ribosome HEK-293 cells     22199352 Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-9-5p
Interactor2: CCDC50

Evidence Support:

Weak-Evidence	Microarray
Support Database	ViRBase

References:

PMID	22174674	Target region	None
Source	ViRBase	Interactor1 expression	None
Tissue or cell line	EA.hy926 cells	Interactor2 expression	Downregulation
Description	As KSHV putative direct targets we extracted transcripts that were significantly down-regulated significantly in the replicate experiments, and which contained at least one seed-match to one of the KSHV miRNAs. We identified 704 putative direct targets in DG-75 cells (Figure 3B), and 980 putative direct targets in EA.hy926 cells (Figure 3C). A complete list of putative direct targets can be found in Dataset S2 for DG-75 cells and in Dataset S3 for EA.hy926 cells. The overlap between the two datasets contained 153 putative direct targets (Dataset S4).