VISDB Viral Integration Site DataBase

VIS ID

TVIS10009628

Fusion event

HBV-RARB 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

precore/core protein|Core and e antigen|

Start

1936

Orient

-

Integrated sequence

CTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTA| |CTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCC

Chromosome

chr3

Cytoband

p24.2

Reference genome

Start

End

25488292/25446801 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-16-2-3p ; hsa-mir-30c-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-33a-3p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-545-5p ; hsa-mir-4307 ; hsa-mir-6792-5p ; hsa-mir-6838-5p ; hsa-let-7c-5p ; hsa-mir-548c-3p ; 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-578 ; hsa-mir-1-3p ; hsa-mir-106a-5p ; hsa-mir-146a-5p ; hsa-mir-146b-5p

Nearest miRNA

hsa-mir-12127/Upstream/5309160; hsa-let-7g/Downstream/218072;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/616201, chr3-CpG: 125/Downstream/217264

Nearest cancer related gene

RARB(TSG, No orient, 0)

Upstream sequence

GAGATAGGTAGCAACAAGTTGGTTATTTTTTTAAGGTGGAGAAATTGAAGCTTGGCATCCCAGTGTCCCATTCAAGACGTTCCAAGCAGTAGATGGAAAT

Downstream sequence

caaaaaaaaaaaaaaaaaaaaaaaaaaaaaTTAAAAAATGAATAGGACTGTTAGGAATATAAATGTGTACTTGGTTTCTCATTTATACTAATCTTGCGTG