VISDB Viral Integration Site DataBase

VIS ID

TVIS10010198

Fusion event

HBV-SNED1 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

X protein|precore/core protein|

Start

1837

Orient

+

Integrated sequence

GGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCC| |TAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTAC

Chromosome

chr2

Cytoband

q37.3

Reference genome

Start

End

242025042/241085627 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-4666b ; hsa-mir-5011-3p ; hsa-mir-4775 ; hsa-mir-506-3p ; hsa-mir-124-3p ; hsa-mir-6815-3p ; hsa-mir-103a-2-5p ; hsa-mir-135b-5p ; hsa-mir-135a-5p ; hsa-mir-590-3p ; hsa-mir-4753-5p

Nearest miRNA

hsa-mir-10b/Upstream/629538; hsa-mir-3133/Downstream/392278;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/19941, chr2-CpG: 59/Downstream/16501

Upstream sequence

aggtcctcatctgctatttctgtcatcactctcatgtctgggtcttattctatttgattatttttctctaggttatgggtcacttttttgattattcaaa

Downstream sequence

tgattcttgaatgtcttatagttttttattggatgctgggcattgtaagttttatgttactgacgctggatttgtttgtttgtttgttttcttttcaaga