VISDB Viral Integration Site DataBase

VIS ID

TVIS10013995

Fusion event

HBV-ARHGEF12 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

S protein|Polymerase|large S protein|middle S protein|

Start

396

Orient

+

Integrated sequence

GTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTT| |ATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCT

Chromosome

chr11

Cytoband

q23.3

Reference genome

Start

End

120210369/120339660 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-1225-3p ; hsa-mir-30c-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-1250-3p ; hsa-mir-660-5p ; hsa-mir-362-3p ; hsa-mir-329-3p

Nearest miRNA

hsa-mir-10392/Upstream/1026648; hsa-let-7a-2/Downstream/1760097;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/2720, chr11-CpG: 126/Downstream/171508

Nearest cancer related gene

ARHGEF12(TSG, No orient, 0)

Upstream sequence

CTGTATGTGGTATGGCTTTGTTTCGTAGAGTGTGCAGAACCACCAGGCCAGCTGTGTGAGTTAGAGTTCTTTCATTGTGGTGCTTCTGACTACAGAGTCT

Downstream sequence

GTCTGTCCTCAGTTGAAATCAGACTAGCTGGTTTTGGGCGTTGTTCTGTTTTGCAGTTTGTGGCAGGCGACACATGGCTGAACAAGATAAGGGTTTTATT