VISDB Viral Integration Site DataBase

VIS ID

TVIS10008966

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

S protein|Polymerase|large S protein|middle S protein|

Start

326

Orient

-

Integrated sequence

GAATCCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAAC| |CTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGC

Chromosome

chr6

Cytoband

q26

Reference genome

Start

End

162054500/161633468 (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/2868715; hsa-mir-1913/Downstream/4875886;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/640936, chr6-CpG: 76/Downstream/12417

Nearest cancer related gene

PRKN(TSG, No orient, 0)

Upstream sequence

tgactgacagtgcagcgggtttgtttccaccagcatcaccaccaacaggtgagtaatgcagtgcactacatcacaatggctatgacatttctaagccata

Downstream sequence

tctgtagaaatttatcaaacaaattaacattattgacttttaaACAGACACTGTAGACAGTTTCAAAGAATATCACGAGGATTTTGTAAAAGCCACATCA