VISDB Viral Integration Site DataBase

VIS ID

TVIS10011612

Fusion event

HBV-SMAD5 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

1749

Orient

-

Integrated sequence

TCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGA| |GGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTT

Chromosome

chr5

Cytoband

q31.1

Reference genome

Start

End

135509775/136174086 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-130a-3p ; hsa-mir-186-5p ; hsa-mir-16-5p ; hsa-mir-135a-5p ; hsa-mir-145-5p ; hsa-mir-135b-5p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-559 ; hsa-mir-548b-5p ; hsa-mir-548a-5p ; hsa-mir-548c-5p ; hsa-mir-548d-5p ; hsa-mir-548j-5p ; hsa-mir-548h-5p ; hsa-mir-548i ; hsa-mir-548w ; hsa-mir-548y ; hsa-mir-548o-5p ; hsa-mir-548ab ; hsa-mir-548ad-5p ; hsa-mir-548ae-5p ; hsa-mir-548ak ; hsa-mir-548am-5p ; hsa-mir-548ap-5p ; hsa-mir-548aq-5p ; hsa-mir-548ar-5p ; hsa-mir-548as-5p ; hsa-mir-548au-5p ; hsa-mir-548ay-5p ; hsa-mir-548bb-5p ; hsa-mir-3133 ; hsa-mir-377-5p ; hsa-mir-329-5p ; hsa-mir-655-5p ; hsa-mir-1304-5p ; hsa-mir-2052 ; hsa-mir-6086 ; hsa-mir-7856-5p ; hsa-mir-4742-3p ; hsa-mir-299-3p ; hsa-mir-3658 ; hsa-mir-8055 ; hsa-mir-3653-3p ; hsa-mir-4477a ; hsa-mir-675-3p ; hsa-mir-4766-3p ; hsa-mir-657 ; hsa-mir-548p ; hsa-mir-548l ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-4417 ; hsa-mir-6721-5p ; hsa-mir-4736 ; hsa-mir-3692-3p ; hsa-mir-4511 ; hsa-mir-4279 ; hsa-mir-6881-3p ; hsa-mir-302a-5p ; hsa-mir-877-3p ; hsa-mir-222-3p ; hsa-mir-548a-3p ; hsa-mir-23a-3p ; hsa-mir-27a-3p ; hsa-mir-34a-3p ; hsa-mir-3659 ; hsa-mir-4252 ; hsa-mir-4668-3p ; hsa-mir-5690 ; hsa-mir-6889-3p

Nearest miRNA

hsa-mir-10397/Upstream/371011; hsa-mir-103a-1/Downstream/1473486;

Nearest TSS

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/40613, chr5-CpG: 171/Downstream/17282

Upstream sequence

GTGGAACAGTATATGCATGGATCTTAAGACGGGAAAAGGCTggccaggcacggtggctcatgcctgtaatcccagcactttgggaggccaaggtgggcag

Downstream sequence

TCTCTTTCTCTCATAGAGATGATAAATGATTGTTGGGAAAGGAAAAAGAGAACAACCTAAAAATGGATAACTTAATCTGCTGCCTATTTGAGGCTTCTCT