VISDB Viral Integration Site DataBase

VIS ID

TVIS10013558

Fusion event

HBV-XRN2 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

Polymerase|

Start

1325

Orient

-

Integrated sequence

CCATCAGCGCATGCGTGGAACCTTTTCGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATT| |ATCGGGACTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTG

Chromosome

chr20

Cytoband

p11.22

Reference genome

Start

End

21344164/21363526 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-9-5p ; hsa-mir-760 ; hsa-mir-186-5p ; hsa-mir-4477a ; hsa-mir-606 ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac

Nearest miRNA

hsa-mir-103a-2/Upstream/2892835; hsa-mir-1-1/Downstream/4844660;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/59718, chr20-CpG: 53/Downstream/27877

Upstream sequence

TAATGAGCACAAATACTTAACTACCATTTTCTCTGTCATCCTCTTAAACCTTTATCACTGCCTGTCCTACCTTGCCCTGCCCCATGCCATCTTGCCAGTA

Downstream sequence

CAGAAAATCTGAGCTAAAGACAGTTGTCAGTGAAGAGTGAGTTGTAAGAAGAACTAGTTGAGTAATAAGTATTGTTCAGCTGTTGAGCTTATGGTATATT