VISDB Viral Integration Site DataBase

VIS ID

TVIS10010929

Fusion event

HBV-SMARCA2 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|Polymerase|

Start

2333

Orient

+

Integrated sequence

GAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCC| |GGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAA

Chromosome

chr9

Cytoband

p24.3

Reference genome

Start

End

2126024/2126024 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-199a-3p ; hsa-mir-199a-5p ; hsa-mir-186-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-19b-3p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-19a-3p

Nearest miRNA

hsa-mir-1302-9/Upstream/2095743; hsa-let-7a-1/Downstream/2724273;

Nearest TSS

Nearest CpG islands

None/Target, chr9-CpG: 64/Upstream/78223, chr9-CpG: 24/Downstream/115313

Nearest cancer related gene

SMARCA2(TSG, No orient, 0)

Upstream sequence

ttttggaataggtgtggtgtggtgttgaaaaaaatgtgtattctgttgatttggggtggagagttctgtagatgtctattatgtctgcttggtgcagagc

Downstream sequence

gcatagagactcagtgaatgtttgtgaaaatgaaAGTACAGCCTTAAGAGGAAAGGGAAAGTGACTAACTTATCAGCAGTGTTAGGAGAGCATTTCTCTT