VISDB Viral Integration Site DataBase

VIS ID

TVIS10008168

Fusion event

HBV-chr4 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

2214

Orient

+

Integrated sequence

GGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCAC| |ATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCC

Chromosome

chr4

Cytoband

q21.21

Reference genome

Start

End

79835050/78913896 (Hg38)

Orient

+

Location type

Intronic

Target gene

BMP2K ; PAQR3

miRNAs that regulate target gene

hsa-mir-124-3p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-let-7e-5p ; hsa-mir-1228-3p ; hsa-mir-6124 ; hsa-mir-3148 ; hsa-mir-875-3p ; hsa-mir-6757-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-5002-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-4260 ; hsa-mir-5572 ; hsa-mir-450a-2-3p ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-193b-5p ; hsa-mir-6885-3p ; hsa-mir-6771-3p ; hsa-mir-1909-5p ; hsa-mir-4693-3p ; hsa-mir-551b-5p ; hsa-mir-4311 ; hsa-mir-548c-3p ; hsa-mir-4477a ; hsa-mir-508-5p ; hsa-mir-3145-5p ; hsa-mir-606 ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-4672 ; hsa-mir-466 ; hsa-mir-3941 ; hsa-mir-610 ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-5697 ; hsa-mir-101-5p ; hsa-mir-8062 ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-4762-3p ; hsa-mir-500a-3p ; hsa-mir-3192-3p ; hsa-mir-6804-3p ; hsa-mir-29a-5p ; hsa-mir-3920

Nearest miRNA

hsa-mir-12113/Upstream/2338270; hsa-mir-1243/Downstream/3839441;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/137092, chr4-CpG: 68/Downstream/25163

Nearby gene

BMP2K(-1709) ; PAQR3(+4044) ;

Upstream sequence

GGCAGCAGTTTTCTTAATGGGGGAAGAATACAAGAGTATAGTTTTCCTTCTGTGCAGTAATTTCTCCATCAAGTTCTTTTATACAGTGGCAATTCTATGT

Downstream sequence

CACCTTTTTTTTTTTTTCTGATTCTCAGGTTGATTAATACTGCTAATGCAAATGCTCAAGTAGATGTTTAAAAACTTTACAAAATAGATTCAAGTGATAC