VISDB Viral Integration Site DataBase

VIS ID

TVIS10006886

Fusion event

HBV-HDGFL2 integration

Validated

Yes

Detection method

Alu PCR and sequencing

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2015

PubMed ID

Virus name

HBV

Subtype

C2

Reference genome

Region type

pre-core/core,X protein

Start

1819

Integrated sequence

TGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATA

Chromosome

chr19

Cytoband

p13.3

Reference genome

Start

End

4472700/4472703 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-4423-3p ; hsa-mir-3148 ; hsa-mir-873-5p ; hsa-mir-449c-5p ; hsa-mir-34b-5p ; hsa-mir-2682-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac

Nearest miRNA

hsa-mir-1227/Upstream/26655; hsa-let-7e/Downstream/297967;

Nearest TSS

Nearest CpG islands

None/Target, chr19-CpG: 112/Upstream/14660, chr19-CpG: 44/Downstream/10331

Nearest cancer related gene

HDGFL2(OG, No orient, 0)

Upstream sequence

TGGGGGTCCTGGGCCGCAGGGAGCTGCGCCCTAGGGGTCTGGGGTTGTCCGGGGCCTGCCGGAGCCGCGCCCCGGGGTCTAGGGATCCTGGGCCTCAGGG

Downstream sequence

AGCCCCGCCCTCGGGGCCTGGGGGTCCTGGGCTGCAGGGAGCCGCGTTCTTGTGGTCTGGTGGTGTTCGGATCCTGCAGGACCCGCCGTCTGGGCCTGCA