VISDB Viral Integration Site DataBase

VIS ID

TVIS10014780

Fusion event

HBV-PRKN integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

1466

Orient

+

Integrated sequence

CCTTCCCATGGCTGCTCGGGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCG| |GGGCCGTTTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCAT

Chromosome

chr6

Cytoband

q26

Reference genome

Start

End

162298236/161877204 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-3187-3p ; hsa-mir-1303 ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-193b-5p ; hsa-mir-4755-3p ; hsa-mir-483-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-181a-5p

Nearest miRNA

hsa-mir-10398/Upstream/3112451; hsa-mir-1913/Downstream/4632150;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/230547, chr6-CpG: 75/Downstream/850140

Nearest cancer related gene

PRKN(TSG, No orient, 0)

Upstream sequence

gctattgttaccatcagtgtaccacagacttcaaattcctccagtggtgggccactgctaccttggttttaattcagggcctgcaatgctagagggtttt

Downstream sequence

AAGCAGCCCAAATCCCACTGGTGTCCCCCACTCCAGCCACGGCGGCCCCATTCCTCCTGTCTGGACCCTGCTAGGTGAGGACAGCCTCAGGCTCCTGTGA