VISDB Viral Integration Site DataBase

VIS ID

TVIS10013942

Fusion event

HBV-PTPRK 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

1791

Orient

-

Integrated sequence

CCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCA| |TAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGT

Chromosome

chr6

Cytoband

q22.33

Reference genome

Start

End

128629067/128307922 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-30a-5p ; hsa-mir-133b ; hsa-mir-9-5p ; hsa-mir-935 ; hsa-mir-877-3p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-149-5p ; hsa-mir-218-5p ; hsa-mir-1283 ; hsa-mir-7849-3p ; hsa-mir-548c-3p

Nearest miRNA

hsa-mir-10398/Upstream/1823209; hsa-mir-1202/Downstream/3484250;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/791361, chr6-CpG: 173/Downstream/211091

Nearest cancer related gene

PTPRK(TSG, No orient, 0)

Upstream sequence

CTAAAAAAAGGTTTCTTGCCTCTTGCCATCCCACCCTGTAATTTGTGACATCCCAAATAACCTTCTCATGCTTCAGATTCACCATACTAggctagaacag

Downstream sequence

cttagcaatatcactacttagcaatatcatacacatgtacatgaatgctcataacaacatttttaaaaatattaccactagaaaaccagaaaacaaccca