VISDB Viral Integration Site DataBase

VIS ID

TVIS10013561

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

X protein|

Start

1784

Orient

-

Integrated sequence

TCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCT| |GTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGC

Chromosome

chr20

Cytoband

q12

Reference genome

Start

End

41402147/42773507 (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/1604429; hsa-mir-1-1/Downstream/1634613;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/774122, chr20-CpG: 173/Downstream/415328

Nearest cancer related gene

PTPRT(TSG, No orient, 0)

Upstream sequence

atctcactgaaacccccaaaaaatccaggaagtgggcagtatccccatttCCCCAATGTACTTTTACTCAGGTTTTTAAACTAATGACAGCAGCTCAGAG

Downstream sequence

ACCCCTCAGGCTACCTTTGAGCCACCATGGCTGGTGTGGTGTCAAGGACCCAAGGCCCGGGGAAAACCACCTCTATGGGCTTTTCAGAGTTGAAAATTCC