VISDB Viral Integration Site DataBase

VIS ID

TVIS10013562

Fusion event

HBV-PTPRT 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

2311

Orient

+

Integrated sequence

CACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATG| |CCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATC

Chromosome

chr20

Cytoband

q12

Reference genome

Start

End

41500011/42871371 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-331-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-16-5p ; hsa-mir-3928-3p ; hsa-mir-215-5p ; hsa-mir-3149 ; hsa-mir-630 ; hsa-mir-29a-5p ; hsa-mir-186-3p ; hsa-mir-664a-3p ; hsa-mir-5096 ; hsa-mir-197-3p ; hsa-mir-103a-2-5p ; hsa-mir-583 ; hsa-mir-1276 ; hsa-mir-4311 ; hsa-mir-6809-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6832-3p ; hsa-mir-515-3p ; hsa-mir-5581-5p ; hsa-mir-7702 ; hsa-mir-4297 ; hsa-mir-6747-3p ; hsa-mir-4524b-3p ; hsa-mir-3909 ; hsa-mir-4494 ; hsa-mir-4633-3p ; hsa-mir-4738-3p ; hsa-mir-4766-3p ; hsa-mir-4773 ; hsa-mir-499b-5p ; hsa-mir-6500-5p ; hsa-mir-6736-3p ; hsa-mir-6852-3p ; hsa-mir-6874-5p

Nearest miRNA

hsa-mir-103a-2/Upstream/1702293; hsa-mir-1-1/Downstream/1536749;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/871986, chr20-CpG: 173/Downstream/317464

Nearest cancer related gene

PTPRT(TSG, No orient, 0)

Upstream sequence

atttgtttatcttctttggacaaatgtctatttcagccctttttaaaaaaaaaaaaaaaatcaggttatttgttttgttattgttgagtGgtaggcattc

Downstream sequence

tttatgtattccagatagtaaccctacaagagaggtttgtaaatattttctcccattccacaggttgtcttttaattctgttccctttgaaacacattag