VISDB Viral Integration Site DataBase

VIS ID

TVIS10008058

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

precore/core protein|

Start

1887

Orient

-

Integrated sequence

GGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTT| |GGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAG

Chromosome

chr5

Cytoband

q31.1

Reference genome

Start

End

135508386/136172697 (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/369622; hsa-mir-103a-1/Downstream/1474875;

Nearest TSS

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/39224, chr5-CpG: 171/Downstream/18671

Upstream sequence

ccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccct

Downstream sequence

TGTTGTACTTGCCATGAACCATGCATTGTGAAAGGTGCTAGAAACATACAAAGAAGTTTGACACGTGGCCTCTGCCTTAAGTTGCCGATATTGAAGAATG