Basic Information
VIS ID
TVIS43000052
Fusion event
MCV-SF3B1 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
3775
Integrated sequence
GAGCCTGTCTGAATAGACCCATAGTATCTACTGTTTTCATTTTTAGAAGGATCAGGACACCATACTTCTATAGGATAATTTCCATCTTTATCTAATTTTG| |CTTTAGCTTGTGGATCTAGGCCCTGATTTTTAGGTGTCATTTTTCTTCCTAATACAGTTTCAATTGTAATAGGCCCACCATTTGTAGTTTTTGGATACTC
Host Sequence
Chromosome
chr2
Cytoband
q33.1
Reference genome
GRCh38
Start
197433173 (Hg38)
End
197433173 (Hg38)
Location type
Intron1
Fragile sites / regions
FRA2I
Target gene
SF3B1
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-504-5p ; hsa-mir-423-3p ; hsa-let-7b-5p ; hsa-mir-1260b ; hsa-mir-127-5p ; hsa-mir-539-5p ; hsa-mir-493-5p ; hsa-mir-4639-5p ; hsa-mir-379-5p ; hsa-mir-3529-5p ; hsa-mir-382-5p ; hsa-mir-495-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-3653-5p ; hsa-mir-325 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-498 ; hsa-mir-6778-3p ; hsa-mir-2276-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-6890-3p ; hsa-mir-4284 ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p
Nearest miRNA
hsa-mir-10b/Upstream/8300062; hsa-mir-1244-1/Downstream/9350061;
Nearest TSS
ENST00000437798/Upstream/13058; ENST00000488445/Downstream/1843;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/122496, chr2-CpG: 61/Downstream/1347
Upstream sequence
GGCTTAACAAGAGAAAACAGTGATGGACCATGAAGAACTAGAGTTCCATTAGGAAGGAAGCAACAAGCTATGTCAGTATTATGTGTATTTCTACTAAACA
Downstream sequence
TTTATCATCCCCTGACATATCCCATAGGGATGGGCACAGACAGTGCTCAAGTATTGAATGTTCTGCTATTTTCTTATGGTATCACTTAATTCACATTGAT
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