VISDB Viral Integration Site DataBase

VIS ID

TVIS10012961

Fusion event

HBV-PRKN 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

X protein|precore/core protein|

Start

1818

Orient

+

Integrated sequence

GTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATG| |CAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTT

Chromosome

chr6

Cytoband

q26

Reference genome

Start

End

161778252/161357220 (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/2592467; hsa-mir-1913/Downstream/5152134;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/364688, chr6-CpG: 76/Downstream/288665

Nearest cancer related gene

PRKN(TSG, No orient, 0)

Upstream sequence

TTACTCTGCTAAGCTAATATTTTCCAGATTCAGATTCTAAATTCAACAAGTTCAGTTACAATTATAATTCAGGTTTACATTTACTTGTTCAAAGAAAGAA

Downstream sequence

tttctatttttagtggagacggggtttcgccatgttggccaggctggtctcgaactcctgacctcaggtgatccgcctgccttggcctcccaaagtgctg