VISDB Viral Integration Site DataBase

VIS ID

TVIS10007705

Fusion event

HBV-chrX 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|Polymerase|

Start

2326

Orient

-

Integrated sequence

ACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAA| |CACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAG

Chromosome

chrX

Cytoband

q23

Reference genome

Start

End

109666414/110423186 (Hg38)

Orient

+

Location type

Intronic

Target gene

AMMECR1 ; RTL9

miRNAs that regulate target gene

hsa-mir-98-5p ; hsa-let-7a-5p ; hsa-mir-375 ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-181a-5p ; hsa-mir-192-5p ; hsa-mir-10b-3p ; hsa-mir-92a-3p ; hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-567 ; hsa-mir-511-3p ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p

Nearest miRNA

hsa-let-7f-2/Upstream/340968; hsa-mir-105-1/Downstream/2357532;

Nearest TSS

Nearest CpG islands

None/Target, chrX-CpG: 62/Upstream/104864, chrX-CpG: 45/Downstream/372532

Upstream sequence

aggattccctatttaataaatggtgctgggaaaactggctagccatatgtagaaagctgaaactggatcccttccttacaccttatacaaaaatcaattc

Downstream sequence

gggtggtggaacatgcctgtaatcccagctactcgggagtctgagacaggagaattgcttgaacctgggaggttgaggttgcagtgagccaagattgtgc