VISDB Viral Integration Site DataBase

VIS ID

TVIS10020138

Fusion event

HBV-chr16 integration

Validated

No

Detection method

VirusScan

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

1175

End

2275

Orient

+

Integrated sequence

CCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGT

Chromosome

chr16

Cytoband

q22.1

Reference genome

Start

End

70196816/70162913 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

LOC400541 ; PDPR

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-18a-3p ; hsa-mir-544a ; hsa-mir-3907 ; hsa-mir-7106-5p ; hsa-mir-1193 ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-6894-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6132 ; hsa-mir-6836-5p ; hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-17-3p ; hsa-mir-1205 ; hsa-mir-1184 ; hsa-mir-3158-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4756-5p ; hsa-mir-4270 ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-2392

Nearest miRNA

hsa-mir-1225/Upstream/131441; hsa-mir-11401/Downstream/6706023;

Nearest TSS

Nearest CpG islands

None/Target, chr16-CpG: 29/Upstream/47007, chr16-CpG: 69/Downstream/25134

Upstream sequence

ataaTACGAGTTAGGGAAAGTTGGAGAATTTTATAGTTGCTGATATCAGCAAATCGTGAGTTTCAAGCACTACTTACAGAAGGAAGTCCAAAATTAAAGG

Downstream sequence

GCTTCCATCCACAAGTTGGTCCCTGGACTTGACCTGTTCACTAAtttttttttttgaggcagagtcttgctcttttgcccaggctggagtacagtggtgt

Target sequence

AGACCATCTTCTGCCTTCTTATTTTCCTGTCTGTCAAAGACAGAAATTACAGGAGATAGGGAGGGTTTTTTAGCATCTCTTTCAAAAGATGTATGTCAGAATTTCCTTTGCACACCAAGAACTGGAGCTTAGAGCCCCACTATTCTCTAAGCCAGGTTCTAGTGCCTTACACTCCAGAATGTCAGATGGTGGGTGCAGATTGGAAGAAAGAGAAAAGTTCATCTCGGTGTGTGGGTTCCCATCCGCCCCACATAG