VISDB Viral Integration Site DataBase

VIS ID

TVIS10016116

Fusion event

HBV-GAPVD1 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Start

1720

Orient

-

Integrated sequence

AATCCTCACAATACCACAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACACCCGTGTGTCTTGGCCAAAATTCGCAGTCCCAAATC| |TCCAGTCACTCACCAACTTGTTGTCCTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTGCATCCTGCTGCTATGCC

Chromosome

chr9

Cytoband

q33.3

Reference genome

Start

End

128034312/125272033 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-34a-5p ; hsa-mir-98-5p ; hsa-mir-21-5p ; hsa-let-7b-5p ; hsa-mir-30c-5p ; hsa-mir-4280 ; hsa-mir-3192-5p ; hsa-mir-6510-3p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6888-3p ; hsa-mir-196a-3p ; hsa-mir-661 ; hsa-mir-873-3p ; hsa-mir-4522 ; hsa-mir-3120-5p ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-3187-5p ; hsa-mir-5189-5p ; hsa-mir-1285-3p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-939-3p ; hsa-mir-3664-5p ; hsa-mir-302c-5p ; hsa-mir-6873-3p ; hsa-mir-3143 ; hsa-mir-492 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-136-5p ; hsa-mir-197-3p ; hsa-mir-6809-3p ; hsa-mir-3692-3p ; hsa-mir-4753-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-6802-3p ; hsa-mir-6886-3p ; hsa-mir-942-5p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-1224-3p ; hsa-mir-140-3p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-6779-3p ; hsa-mir-4687-5p ; hsa-mir-6516-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-455-3p ; hsa-mir-6807-5p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-7847-3p ; hsa-mir-6880-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-6499-3p ; hsa-mir-767-5p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-6134 ; hsa-mir-1185-5p ; hsa-mir-1224-5p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3165 ; hsa-mir-3605-5p ; hsa-mir-363-5p ; hsa-mir-3656 ; hsa-mir-3679-5p ; hsa-mir-3913-5p ; hsa-mir-3915 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-450a-1-3p ; hsa-mir-4689 ; hsa-mir-5186 ; hsa-mir-6513-5p ; hsa-mir-6745 ; hsa-mir-6788-5p ; hsa-mir-6858-5p ; hsa-mir-6888-5p ; hsa-mir-887-5p

Nearest miRNA

hsa-let-7a-1/Upstream/578235; hsa-mir-12126/Downstream/2418654;

Nearest TSS

Nearest CpG islands

None/Target, chr9-CpG: 64/Upstream/9716, chr9-CpG: 110/Downstream/135853

Nearby gene

HSPA5(-30646) ; MAPKAP1(+165360) ;

Upstream sequence

AAAAGGGACAAGCTGGCCCTCCTGGGGTCATGGGACCCCCAGGGCCTCCTGGACCCCCTGGGCCCCCAGGCCCTGGATGCACAATGGGACTTGGATTCGA

Downstream sequence

gagatggggtttcaccatgttggccaggctggtctcaaactcccaacatcaggtgatcctcccgccttggcctcccaaagtgctgggattacaggcgtga