VISDB Viral Integration Site DataBase

VIS ID

TVIS10008905

Fusion event

HBV-XRN1 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|precore/core protein|

Start

1827

Orient

-

Integrated sequence

AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT

Chromosome

chr3

Cytoband

q23

Reference genome

Start

End

142160086/142441244 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-10a-5p ; hsa-let-7b-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-4747-3p ; hsa-mir-1295b-3p ; hsa-mir-6507-5p ; hsa-mir-1277-5p ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p

Nearest miRNA

hsa-let-7g/Upstream/8003338; hsa-mir-1224/Downstream/9124632;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/215566, chr3-CpG: 71/Downstream/6116

Upstream sequence

TGAAGGTAGAGAGATCCCCAACCAGCTGTTTTCTCCTCTGATTAAAAATTCCTTCATATTCAACTACTAACCTTTTGCTCTTACACACACACACATTTTA

Downstream sequence

gccgaatatggattcccaggtacggcaaaatagccagaccattatatacactaattaaggaaactcagaaagccaatacccatttagtaagatggacacc