VISDB Viral Integration Site DataBase

VIS ID

TVIS10014493

Fusion event

HBV-SEMA6D 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

Polymerase|large S protein|

Start

2854

Orient

+

Integrated sequence

CACTCTATGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGG| |GCAGAATCTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAAT

Chromosome

chr15

Cytoband

q21.1

Reference genome

Start

End

47648720/47356523 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-130a-5p ; hsa-mir-23c ; hsa-mir-3662 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4506 ; hsa-mir-7-5p ; hsa-mir-5003-5p ; hsa-mir-8485 ; hsa-mir-3529-3p ; hsa-mir-589-3p ; hsa-mir-8068 ; hsa-mir-1225-5p ; hsa-mir-10b-3p ; hsa-mir-1278 ; hsa-mir-1911-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-3182 ; hsa-mir-361-5p ; hsa-mir-3617-3p ; hsa-mir-374a-3p ; hsa-mir-4303 ; hsa-mir-4490 ; hsa-mir-452-5p ; hsa-mir-4659a-3p ; hsa-mir-4659b-3p ; hsa-mir-4676-3p ; hsa-mir-4682 ; hsa-mir-513a-5p ; hsa-mir-6736-3p ; hsa-mir-892c-3p ; hsa-mir-4433a-3p ; hsa-mir-4433b-3p ; hsa-mir-4496 ; hsa-mir-4722-5p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-6165

Nearest miRNA

hsa-mir-10393/Upstream/1923394; hsa-mir-11181/Downstream/1812547;

Nearest TSS

Nearest CpG islands

None/Target, chr15-CpG: 55/Upstream/171221, chr15-CpG: 129/Downstream/360698

Upstream sequence

AGCACAGTTAAAGCTGGGAAAAATCAGAAGATTTTGAGTCTAGTGTTGAAGGATCTGTTCACCAGGGATTGTGCTGTGggaagatgaggaggaagaggag

Downstream sequence

gaggaggaATTTAAAACAGACCTATATAAATAGAGAAGAGAGAGCGAAAAAAAAAAAAAATCCTTACAAAGGTGTGTGTCATAGGATATGAGGGCTGGAC