VISDB Viral Integration Site DataBase

VIS ID

TVIS10011275

Fusion event

HBV-RTN4RL1 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

1817

Orient

-

Integrated sequence

TGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCAT| |GCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCT

Chromosome

chr17

Cytoband

p13.3

Reference genome

Start

End

1858992/1955698 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-6831-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4732-5p ; hsa-mir-6832-5p ; hsa-mir-574-5p ; hsa-mir-3668 ; hsa-mir-7852-3p ; hsa-mir-5011-5p ; hsa-mir-5586-3p ; hsa-mir-5010-3p ; hsa-mir-223-5p ; hsa-mir-1257

Nearest miRNA

hsa-mir-22/Upstream/241711; hsa-mir-10226/Downstream/94210;

Nearest TSS

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/17783, chr17-CpG: 120/Downstream/42134

Upstream sequence

tttgagagaaagtctcactctgtcgcccaggctggagtgcagtggcgcgatctcggctcactgcaacctccacctcccgggttcaagcgattctcccatc

Downstream sequence

tcaacctcctgagtagctgggattacaggcgcccaccaccatgcccggcgaatttttgtatttttagtagagacagggtttcgccatgtaggccaggctg