VISDB Viral Integration Site DataBase

VIS ID

TVIS10012224

Fusion event

HBV-CLSTN3 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

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

2330

Orient

-

Integrated sequence

TTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACT| |TCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCT

Chromosome

chr12

Cytoband

p13.31

Reference genome

Start

End

7291403/7138807 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1229-3p ; hsa-mir-877-3p ; hsa-mir-3941 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-4457 ; hsa-mir-3922-5p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-377-3p ; hsa-mir-342-3p

Nearest miRNA

hsa-mir-141/Upstream/174616; hsa-let-7i/Downstream/2100660;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/119755, chr12-CpG: 64/Downstream/50671

Upstream sequence

TGCAGCCTCTTCATTATTTATTCTCCAGGCTGACCACAAGGACCAGTGAGGACTAATTTGAGTTTTCACCTCCTTCTGTTTCTCTTGCAAGTCCTGGTGG

Downstream sequence

AGTGGCTGAGTAAGCAAACGGCaaaaaaaaaaaaaaaaaaaaaaaaaaaGCATTAGAAGAGAGAAAAGAAGTGCCCAGATAATTTATAAACTAGATAATT