VISDB Viral Integration Site DataBase

VIS ID

TVIS10011416

Fusion event

HBV-SHANK2 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|

Start

1745

Orient

+

Integrated sequence

AAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGG| |GGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATC

Chromosome

chr11

Cytoband

q13.4

Reference genome

Start

End

70704028/70857923 (Hg38)

Orient

+

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/573853; hsa-let-7a-2/Downstream/14347;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/30973, chr11-CpG: 211/Downstream/393204

Upstream sequence

CAGCGATGGGGCACTTCCATGAGTCACACACCATGTTCCACGGCTCACACACATCCTCTCAAGATGCTGAGACCCAGGATGGGGCTACATCTGACCTAGT

Downstream sequence

GTGTGGGTGCTTCACTGCAGCCTCCACCCACCCCACCTTGGAATCCTTGTACTGTAGCATGATGGATTATCTGGGCCTGTGGCAAGTTGCAAGACACCAT