VISDB Viral Integration Site DataBase

VIS ID

TVIS10006855

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

Polymerase

Start

1093

Integrated sequence

AGAATTGTGGGTCTTTTGGGCTTTGCTGCCCCTTTTACACAATGTGGCTATCCTGCCTTAATGCCTTTATATGCATGTATACAATCTAAGCAGGCTTTCA| |CTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATATCTGAACCTTTACCCCGTTGCCCGGCAACGGTCAGGTCTCTGCCAAGTGTTTGCTGACGC

Chromosome

chr19

Cytoband

p13.3

Reference genome

Start

End

4472702/4472705 (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/26657; hsa-let-7e/Downstream/297965;

Nearest TSS

Nearest CpG islands

None/Target, chr19-CpG: 112/Upstream/14662, chr19-CpG: 44/Downstream/10329

Nearest cancer related gene

HDGFL2(OG, No orient, 0)

Upstream sequence

GGGGTCCTGGGCCGCAGGGAGCTGCGCCCTAGGGGTCTGGGGTTGTCCGGGGCCTGCCGGAGCCGCGCCCCGGGGTCTAGGGATCCTGGGCCTCAGGGAG

Downstream sequence

CCCCGCCCTCGGGGCCTGGGGGTCCTGGGCTGCAGGGAGCCGCGTTCTTGTGGTCTGGTGGTGTTCGGATCCTGCAGGACCCGCCGTCTGGGCCTGCAGG