VISDB Viral Integration Site DataBase

VIS ID

TVIS10017670

Fusion event

HBV-SMAD9 integration

Validated

No

Detection method

TS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HBV

Subtype

C

Reference genome

Region type

core protein;

Start

1844

Integrated sequence

GGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCT| |CATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTT

Chromosome

chr13

Cytoband

q13.3

Reference genome

Start

End

37450580/36876443 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-106b-5p ; hsa-mir-203a-3p ; hsa-mir-574-5p ; hsa-mir-653-5p ; hsa-mir-5585-3p ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-665 ; hsa-mir-887-5p ; 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-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; 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-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-890 ; hsa-mir-34b-3p ; hsa-mir-606

Nearest miRNA

hsa-mir-2276/Upstream/12713939; hsa-mir-1267/Downstream/2787591;

Nearest TSS

Nearest CpG islands

None/Target, chr13-CpG: 551/Upstream/56488, chr13-CpG: 94/Downstream/43262

Upstream sequence

CGGTATGAATGGATATTAAACACTGATAGATTTATTCCAGCCAGTCTCTTTCTATTCTTTATGGCTTTACATTTTATGTCATATCTTTTCTTTCTTCTTG

Downstream sequence

CTTTTCATAAGGTACACCATAAAAAGATGTTCACTTCACTTTGGGTTGTCCTGGATTTTTTTTTTTTAATGTCATAAGTTTATTGACAAACATATCTAGT