Basic Information
VIS ID
TVIS43000054
Fusion event
MCV-BEST3 integration
Validated
Yes
Detection method
DIPS-PCR
Data source
Curated
Sample type
Cell line
Disease
Merkel cell carcinoma (MCC)
Quality evaluation
Normal
Reported year
2019
PubMed ID
30873613
Virus Sequence
Virus name
MCV
Reference genome
EU375803
Start
3322
End
3300
Integrated sequence
AATTTATCTAAAAATCTGACAAT
Host Sequence
Chromosome
chr12
Cytoband
q14.3
Reference genome
GRCh38
Start
69690384 (Hg38)
End
69690384 (Hg38)
Location type
Intron4
Target gene
BEST3
miRNAs that regulate target gene
hsa-mir-196b-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-4728-5p ; hsa-mir-6785-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-7106-3p ; hsa-mir-1911-5p ; hsa-mir-3192-5p ; hsa-mir-7113-3p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-4308 ; hsa-mir-624-5p ; hsa-mir-5708 ; hsa-mir-379-5p ; hsa-mir-3529-5p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-4781-5p ; hsa-mir-7158-3p ; hsa-mir-4539 ; hsa-mir-1283 ; hsa-mir-338-3p ; hsa-mir-4724-5p ; hsa-mir-6771-3p ; hsa-mir-337-3p ; hsa-mir-4633-5p ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-625-5p ; hsa-mir-6884-3p ; hsa-mir-483-3p ; hsa-mir-532-5p
Nearest miRNA
hsa-let-7i/Upstream/105561; hsa-mir-1178/Downstream/9728873;
Nearest TSS
ENST00000382841/Upstream/1108; ENST00000549760/Downstream/3688;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/104440, chr12-CpG: 139/Downstream/48176
Upstream sequence
GTATTTCAGTATTCCACATGCCTCGGAAAGGGAAAAGTCTGAATGCAAGTACATGGCAGACATCTGTACAATTTTGAGAGGGAGTGGGCCTTTGTATTCT
Downstream sequence
GAAAAATACACTCAAAGGAAATGAAATCACGTCATTTTCCTATTTGCCTCCCTATATCTACTTGCCCCTCAGACCTGAGCACAGCTCAGTCCTCGGAGCT
Reference
Schrama, D., et al. Characterization of six Merkel cell polyomavirus-positive Merkel cell carcinoma cell lines: Integration pattern suggest that large T antigen truncating events occur before or during integration. Int J Cancer,2019
Curate