VISDB - VIS Detail

Basic Information

VIS ID

TVIS43000046

Fusion event

MCV-chr6 integration

Validated

Detection method

RNA-Seq

Data source

Curated

Sample type

Tumor

Disease

Merkel cell carcinoma (MCC)

Quality evaluation

Normal

Reported year

2017

PubMed ID

28049147

Virus Sequence

Virus name

MCV

Reference genome

HM355825.1

Host Sequence

Chromosome

chr6

Cytoband

p22.3

Reference genome

GRCh37/hg19

Start

20758430/20758199 (Hg38)

End

20758430/20758199 (Hg38)

Location type

Intronic

Target gene

CDKAL1 ; RPGR

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-375 ; 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/2186319; hsa-mir-10398/Downstream/6389427;

Nearest TSS

ENST00000381078/Upstream/211858; ENST00000476517/Downstream/42495;

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/354647, chr6-CpG: 131/Downstream/828991

Upstream sequence

ttcagggtgaatagcagctggaatttatataatcatggttaatgattctcttatgagtaacatggaggaggccagctagTATTATACAAAGTTAAAATGA

Downstream sequence

TACTAGCATGTTCTTTTTGTGTAGCTTGTCGTTTTATGCCATTTTTTTTCCTGAAGCTCTGTGTGAGAAGACATGTGTTAATTAAACTTAAGTTTCTGTC

Reference

Starrett, G. J., et al. Merkel Cell Polyomavirus Exhibits Dominant Control of the Tumor Genome and Transcriptome in Virus-Associated Merkel Cell Carcinoma. MBio,2017, 8(1).