VISDB Viral Integration Site DataBase

VIS ID

TVIS10008889

Fusion event

HBV-STMN3 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

precore/core protein|Core and e antigen|

Start

2149

Orient

+

Integrated sequence

CCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAG| |ACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTAT

Chromosome

chr20

Cytoband

q13.33

Reference genome

Start

End

62277772/63646419 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-106b-3p ; hsa-mir-197-3p ; hsa-mir-92a-3p ; hsa-mir-1260b ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-4472 ; hsa-mir-4447 ; hsa-mir-92a-2-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6846-5p ; hsa-mir-6848-5p ; hsa-mir-4697-5p ; hsa-mir-4488 ; hsa-mir-1237-5p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-6870-5p ; hsa-mir-7111-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-6825-5p ; hsa-mir-3180 ; hsa-mir-7106-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-3928-3p ; hsa-mir-637 ; hsa-mir-4787-5p

Nearest miRNA

hsa-mir-1-1/Upstream/359553; hsa-mir-1914/Downstream/273030;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/3908, chr20-CpG: 150/Downstream/5744

Upstream sequence

GAGCCTCACAGGGGACTTTGGTCTGACTTGTCAAGttttctttttttctttttgagatggagtcttgcactgttgcccaggctgcagtgcagtggtgcga

Downstream sequence

tctcggctcaccgcaagctccgcctcctgggttcacaccattctcctgcctcagcctcccgagtagctgggaccacaggcaccgccaccacacccagcta