VISDB Viral Integration Site DataBase

VIS ID

TVIS10013560

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|

Start

1889

Orient

+

Integrated sequence

CATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGG| |GTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGAT

Chromosome

chr20

Cytoband

q12

Reference genome

Start

End

41402113/42773473 (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/1604395; hsa-mir-1-1/Downstream/1634647;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/774088, chr20-CpG: 173/Downstream/415362

Nearest cancer related gene

PTPRT(TSG, No orient, 0)

Upstream sequence

agtctgacactgtttgtaggactttacacgtcatatctcactgaaacccccaaaaaatccaggaagtgggcagtatccccatttCCCCAATGTACTTTTA

Downstream sequence

CTCAGGTTTTTAAACTAATGACAGCAGCTCAGAGACCCCTCAGGCTACCTTTGAGCCACCATGGCTGGTGTGGTGTCAAGGACCCAAGGCCCGGGGAAAA