VISDB Viral Integration Site DataBase

VIS ID

TVIS10010783

Fusion event

HBV-RBMS3 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|

Start

1741

Orient

+

Integrated sequence

GCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAG| |TTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAAT

Chromosome

chr3

Cytoband

p24.1

Reference genome

Start

End

30040269/29998778 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-3190-3p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-4282 ; hsa-mir-3674 ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-5706 ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-1299 ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-4703-3p ; hsa-mir-5093 ; hsa-mir-3182 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-877-3p ; hsa-mir-1324

Nearest miRNA

hsa-mir-12127/Upstream/4333839; hsa-let-7g/Downstream/1162926;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/1422299, chr3-CpG: 88/Downstream/607717

Nearest cancer related gene

RBMS3(TSG, No orient, 0)

Upstream sequence

gttagggttagggatgtgggtgagggtgaggatgaaggttagggttagggttagggttagggttagggttagggttagggttagggttagggttaggggt

Downstream sequence

ttaaagacttaaatgttagacctaaaaccataaaaactctagaagaaaacctgggcaataccattcaggacataggcatgggcaaggacttcatgtctaa