VISDB Viral Integration Site DataBase

VIS ID

TVIS10008017

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

Polymerase|

Start

1145

Orient

-

Integrated sequence

TCCTGCGTTGATGCCTTTGTATGCATGTATTCAATCTAAGCAGGCTTTCACTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATACCTGAACCTT| |TACCCCGTTGCCCGGCAACGGCCAGGTCTGTGCCAAGTGTTTGCTGACGCAACCCCCACTGGCTGGGGCTTGGTCATGGGCCATCAGCGCATGCGTGGAA

Chromosome

chr6

Cytoband

q26

Reference genome

Start

End

163098968/162677936 (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/3913183; hsa-mir-1913/Downstream/3831418;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/1031279, chr6-CpG: 75/Downstream/49408

Nearest cancer related gene

PRKN(TSG, No orient, 0)

Upstream sequence

GTAAATTTTGGTACCTTTCAGGAATTTTCTTGGAATCTATATGCTCTGACATATGACAGGTCTGAAATCTATCTTCTTAATAACTTTAATAGTCTTACTC

Downstream sequence

tcctcccactttgtaatctcttccttctgcctctccctgacatcctcccaccctccactcacccatttgaattacagattagtttgcattttctggaatt