VISDB Viral Integration Site DataBase

VIS ID

TVIS10008247

Fusion event

HBV-PCGF3 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|precore/core protein|

Start

1827

Orient

-

Integrated sequence

AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT

Chromosome

chr4

Cytoband

p16.3

Reference genome

Start

End

758645/764857 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-196a-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-mir-98-5p ; hsa-mir-223-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-379-5p ; hsa-mir-511-3p ; hsa-mir-1304-5p ; hsa-mir-3927-3p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-3529-5p ; hsa-mir-4524b-3p ; hsa-mir-6831-5p ; hsa-mir-8055 ; hsa-mir-493-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-let-7c-3p ; hsa-mir-3977 ; hsa-mir-539-3p ; hsa-mir-485-3p ; hsa-mir-4291 ; hsa-mir-3613-5p ; hsa-mir-202-3p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-922 ; hsa-mir-664a-3p ; hsa-mir-3151-5p ; hsa-mir-92a-2-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-4723-5p ; hsa-mir-5698 ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-3175 ; hsa-mir-8085 ; hsa-mir-6787-5p ; hsa-mir-6731-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-204-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3192-5p ; hsa-mir-326 ; hsa-mir-330-5p ; hsa-mir-4314 ; hsa-mir-4646-5p ; hsa-mir-619-5p ; hsa-mir-6506-5p ; hsa-mir-6741-3p ; hsa-mir-6788-5p ; hsa-mir-6878-5p ; hsa-mir-760 ; hsa-mir-7851-3p ; hsa-mir-873-3p ; hsa-mir-2276-3p ; hsa-mir-335-3p ; hsa-mir-3611 ; hsa-mir-3616-5p ; hsa-mir-4708-3p ; hsa-mir-4793-5p ; hsa-mir-4795-5p ; hsa-mir-5196-3p ; hsa-mir-573

Nearest miRNA

hsa-mir-571/Upstream/414605; hsa-mir-12113/Downstream/1221527;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/4857, chr4-CpG: 78/Downstream/16426

Upstream sequence

tgacaaattatgtaagatattaataagccatgtgagacacactgatagaagatgttaatgagaggaaactaggttgtggctacatgggaaatctctgctt

Downstream sequence

CCCCATCTCTAGGCACGTTCTTGCATGATTGGGGAGGGGCTGCAGATTTCATACCAGCATCAAGGTGGCCATGTCAGTGTGGGTTGAGCACCTCTCCGCT