VISDB Viral Integration Site DataBase

VIS ID

TVIS43000051

Fusion event

MCV-CDKAL1 integration

Validated

Yes

Detection method

DIPS-PCR

Data source

Curated

Sample type

Disease

Merkel cell carcinoma (MCC)

Quality evaluation

Normal

Reported year

2019

PubMed ID

Virus name

MCV

Reference genome

Start

4078

End

2067

Integrated sequence

GCCTCAAACCTCACAAGGCTCATGAGGCTCATCATTCTAATGCTAAGCTATTTTATGAATCTAAATCTCAGAAAACCATTTGCCAACAAGCCGCAGACACTGTTCTAGCCAAAAGGAGGTTAGAGATGCTGGAAATGACCAGGACAGAAATGCTATGTAAGAAGTTTAAGAAGCACCTAGAGAGATTAAGAGATTTAGATACAATAGATCTACTGTATTATATGGGTGGTGTGGCCTGGTACTGCTGCTTATTTG

Chromosome

chr6

Cytoband

p22.2

Reference genome

Start

End

20635170 (Hg38)

Location type

Intron4

Target gene

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-98-5p ; hsa-let-7e-5p ; hsa-mir-1273e ; hsa-mir-887-5p ; 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-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-1282 ; hsa-mir-5707 ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-5690 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-890 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6089 ; hsa-mir-6499-5p ; hsa-mir-5693 ; hsa-mir-500a-5p ; hsa-mir-583 ; hsa-mir-1276 ; hsa-mir-4311 ; hsa-mir-8081 ; hsa-mir-627-5p ; hsa-mir-937-5p ; hsa-mir-3162-5p ; hsa-mir-4266 ; hsa-mir-7154-3p ; hsa-mir-1288-3p ; hsa-mir-202-3p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7a-5p ; hsa-mir-7162-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6760-5p ; hsa-mir-4779 ; hsa-mir-4695-5p ; hsa-mir-3169 ; hsa-mir-6840-3p ; hsa-mir-4459

Nearest miRNA

hsa-mir-3691/Upstream/2063290; hsa-mir-10398/Downstream/6512456;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/231618, chr6-CpG: 131/Downstream/952020

Upstream sequence

gtagaacactggaagaagtgaggtttAgtcatttgcttattaggtctcaaatccaattctctgaccctctcagtcctgttttgtattgcatttcataggt

Downstream sequence

atccttaccatttggcttttgtgagtagatctggacaattggaggcactgatggaagactggagggtaggagtagggagaaggtagggtatttttctccc