VISDB Viral Integration Site DataBase

VIS ID

TVIS10017678

Fusion event

HBV-SHANK2 integration

Validated

No

Detection method

TS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HBV

Subtype

C

Reference genome

Region type

X protein;

Start

1801

Integrated sequence

CATACTTCAAAGACTGTGTATTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTG| |TTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCA

Chromosome

chr11

Cytoband

q13.4

Reference genome

Start

End

70917292/71206246 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-1307-3p ; hsa-mir-155-5p ; hsa-mir-4646-3p ; hsa-mir-4433b-5p ; hsa-mir-4433a-5p ; hsa-mir-4469 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6756-3p ; hsa-mir-3127-3p

Nearest miRNA

hsa-mir-10392/Upstream/333878; hsa-let-7a-2/Downstream/267257;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/379296, chr11-CpG: 211/Downstream/44881

Upstream sequence

gggcagtgtggatggtgtgggtagtgtggGTAACATGGGCAgtgtgggtagtgtgggtagtgtggatagtgtgggtagtgtgggtagtgtggatagtgtg

Downstream sequence

ggtggtgtgggtactgtgggtagcgtggatagtgtgggcagtgtgggtaacgtgggcagtgcgggcagtgtgggtagtgtggatagtgtgggtagtgtgg