VISDB Viral Integration Site DataBase

VIS ID

TVIS10008248

Fusion event

HBV-GABRB2 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

precore/core protein|Core and e antigen|

Start

2298

Orient

+

Integrated sequence

ACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTAT| |AGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGAC

Chromosome

chr5

Cytoband

q34

Reference genome

Start

End

160841361/161414355 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-5197-5p ; hsa-mir-335-3p ; hsa-mir-374a-3p ; hsa-mir-6515-5p ; hsa-mir-4443 ; hsa-mir-6894-5p ; hsa-mir-765 ; hsa-mir-7154-3p ; hsa-mir-766-5p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-382-3p ; hsa-mir-8081 ; hsa-mir-6818-5p ; hsa-mir-6790-5p ; hsa-mir-4658 ; hsa-mir-4758-5p ; hsa-mir-1238-5p ; hsa-mir-943 ; hsa-mir-6867-5p ; hsa-mir-6820-3p ; hsa-mir-3164 ; hsa-mir-3118 ; hsa-mir-134-5p ; hsa-mir-3659 ; hsa-mir-574-5p ; hsa-mir-892a ; hsa-mir-511-3p

Nearest miRNA

hsa-mir-10397/Upstream/928905; hsa-mir-103a-1/Downstream/6751490;

Nearest TSS

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/992249, chr5-CpG: 68/Downstream/133331

Upstream sequence

ccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccct

Downstream sequence

tatgcaaCTTTTTTTATAGTTATTACTACCTGCTAACGTGTAGATACTGTGATAACTCATTTTACTAGAAGTTATTTGGCAGTATGAGTACATGTTTATA