VISDB Viral Integration Site DataBase

VIS ID

TVIS10014007

Fusion event

HBV-FOXN3 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

2310

Orient

+

Integrated sequence

TCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAAT| |GCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAAT

Chromosome

chr14

Cytoband

q31.3

Reference genome

Start

End

89686394/89220050 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-574-5p ; hsa-mir-21-5p ; hsa-mir-92b-3p ; hsa-mir-210-3p ; hsa-mir-4777-3p ; hsa-mir-5096 ; hsa-mir-6790-5p ; hsa-mir-4658 ; hsa-mir-197-3p ; hsa-mir-4477a ; hsa-mir-921 ; hsa-mir-1257 ; hsa-mir-6073 ; hsa-mir-548au-3p ; hsa-mir-449b-5p ; hsa-mir-449a ; hsa-mir-34c-5p ; hsa-mir-34a-5p ; hsa-mir-3659 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-16-1-3p ; hsa-mir-425-5p ; hsa-mir-3174 ; hsa-mir-7153-3p ; hsa-mir-562 ; hsa-mir-6878-3p ; hsa-mir-4666b ; hsa-mir-5011-3p ; hsa-mir-4684-3p ; hsa-mir-203a-3p ; hsa-mir-1245b-3p ; hsa-mir-888-5p ; hsa-mir-409-3p ; hsa-mir-335-3p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-890 ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-374a-3p ; hsa-mir-3686 ; hsa-mir-3607-3p ; hsa-mir-34c-3p ; hsa-mir-4762-3p ; hsa-mir-3192-3p ; hsa-mir-29a-5p ; hsa-mir-3920 ; hsa-mir-6509-5p ; hsa-mir-8067 ; hsa-mir-6508-5p ; hsa-mir-370-5p ; hsa-mir-6867-5p

Nearest miRNA

hsa-mir-1260a/Upstream/11953760; hsa-mir-1185-1/Downstream/4728176;

Nearest TSS

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/57195, chr14-CpG: 200/Downstream/196145

Upstream sequence

ACAGAACTAATCATCGGTCTGCAGTTGACTATTTTTTTAAAATTATAATGATGTATATAATTCCATACTGATATCAACTGATGAGCTGAACTTTATGTTT

Downstream sequence

GCTTTGCTCCATTTTGCTATGCTTTTTGCAAGCCACACCTTCCTCCTCCTTTCTTCTCATCACATTATTCTTCTTCCTCTTGCGAGGCCCAGCAGATCTC