VISDB Viral Integration Site DataBase

VIS ID

TVIS10011056

Fusion event

HBV-LINGO2 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|large S protein|

Start

3096

Orient

-

Integrated sequence

GGAGCATTCGGGCTGGGTTTCACCCCACCGCACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATACTACAAACTTTGCCAGCAAATCCGCCTC| |CTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCATGCAGTGG

Chromosome

chr9

Cytoband

p21.1

Reference genome

Start

End

28283144/28283146 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193

Nearest miRNA

hsa-mir-101-2/Upstream/6770961; hsa-let-7a-1/Downstream/580480;

Nearest TSS

Nearest CpG islands

None/Target, chr9-CpG: 64/Upstream/709157, chr9-CpG: 74/Downstream/929027

Upstream sequence

NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNgaattctcacgttccaagtaga

Downstream sequence

TCCTATTTAGATGAACACTAAAGTATTATTCAAATAACTTTTAACTTGGCCCTTTAGGTAATTCTTCAATAAGTAATGGGTATATACATTTACGTACAAA