VISDB Viral Integration Site DataBase

VIS ID

TVIS10013526

Fusion event

HBV-SOX6 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

2116

Orient

+

Integrated sequence

CGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGG| |TGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACAT

Chromosome

chr11

Cytoband

p15.2

Reference genome

Start

End

16470962/16449415 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

FRA11C ; FRA11I

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-499a-5p ; hsa-mir-155-5p ; hsa-mir-16-5p ; hsa-mir-208a-3p ; hsa-mir-3148 ; hsa-mir-4668-5p ; hsa-mir-562 ; hsa-mir-651-3p ; hsa-mir-548n ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-1269a ; hsa-mir-132-3p ; hsa-mir-202-3p ; hsa-mir-1273h-5p ; hsa-mir-129-5p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-3913-5p ; hsa-mir-450a-1-3p ; hsa-mir-6513-5p ; hsa-mir-6731-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6788-5p ; hsa-mir-6878-5p ; hsa-mir-8085 ; hsa-mir-887-5p

Nearest miRNA

hsa-mir-210/Upstream/479794; hsa-let-7a-2/Downstream/1938372;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/507738, chr11-CpG: 101/Downstream/155091

Upstream sequence

ggagtctcgctgtgtcgcccaggctggagtgcagtggagccatctcggctcactgcaagctccgcctcccgggttcgcgccattctcctgcctccgcctc

Downstream sequence

ctgagtagctgggattacaggcgcccgctaccatgcccggctaattttttgtatttttagtggagacagggtttcaccgtgttagccaggatggtctcga