VISDB Viral Integration Site DataBase

VIS ID

TVIS10010300

Fusion event

HBV-RPS4X 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|

Start

1787

Orient

-

Integrated sequence

ACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTA| |GGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTT

Chromosome

chrX

Cytoband

q13.1

Reference genome

Start

End

71497661/72277811 (Hg38)

Orient

-

Location type

upstream

Target gene

miRNAs that regulate target gene

hsa-mir-92b-3p ; hsa-mir-330-3p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-30b-5p ; hsa-mir-182-5p ; hsa-mir-29b-3p ; hsa-mir-29a-3p ; hsa-mir-23a-3p ; hsa-mir-22-3p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-539-5p ; hsa-mir-487a-3p ; hsa-mir-485-3p ; hsa-mir-154-5p ; hsa-mir-409-5p ; hsa-mir-382-3p ; hsa-mir-3064-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-6719-3p ; hsa-mir-4526 ; hsa-mir-3660 ; hsa-mir-6730-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-195-3p ; hsa-mir-16-2-3p ; hsa-mir-4698 ; hsa-mir-338-5p ; hsa-mir-500a-5p ; hsa-mir-3156-5p

Nearest miRNA

hsa-let-7f-2/Upstream/2254888; hsa-mir-105-1/Downstream/1940566;

Nearest TSS

Nearest CpG islands

None/Target, chrX-CpG: 62/Upstream/434, chrX-CpG: 202/Downstream/27171

Upstream sequence

ttctctggggctggccacatgggcacgcatcaaaattggggtggttttaacaaggcagaagagatgggctactggctgggcagccagcaagatctgccCC

Downstream sequence

gcctgggcgacagagcgagactccgtctcaaaaacaaaacaaaacaaaacaaaacaaaGAACTTGTATATAATCAATAGAATACATTTTAATAAATATTT