VISDB Viral Integration Site DataBase

VIS ID

TVIS10010727

Fusion event

HBV-RAPGEF4 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

1822

Orient

-

Integrated sequence

GTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAA

Chromosome

chr2

Cytoband

q31.1

Reference genome

Start

End

173739389/172874661 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-26b-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

Nearest miRNA

hsa-mir-128-1/Upstream/4291643; hsa-mir-10b/Downstream/2292972;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/138419, chr2-CpG: 86/Downstream/201025

Upstream sequence

tacaaaggacatgaactcatcctttttatggctatatagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgg

Downstream sequence

gttggttccaggtctttgctattgtgaatagtgccgcaataaacatacatgtgcatgtgtctttatagcagcatgatttataatccttcgggtatatacc