VISDB Viral Integration Site DataBase

VIS ID

TVIS10010213

Fusion event

HBV-chr3 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|

Start

2012

Orient

+

Integrated sequence

ACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCT| |GTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACC

Chromosome

chr3

Cytoband

q13.2

Reference genome

Start

End

111543886/111825039 (Hg38)

Orient

+

Location type

Intronic

Target gene

PHLDB2 ; PLCXD2

miRNAs that regulate target gene

hsa-mir-16-5p ; hsa-mir-1-3p ; hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-92a-3p ; hsa-mir-432-5p ; hsa-mir-376a-5p ; hsa-mir-382-3p ; hsa-mir-1273e ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-503-3p ; hsa-mir-6861-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-4291 ; hsa-mir-193a-5p ; hsa-mir-205-5p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-29c-3p ; hsa-mir-148a-3p ; hsa-mir-148b-3p ; hsa-mir-152-3p ; hsa-mir-202-5p ; hsa-mir-298 ; hsa-mir-4709-3p

Nearest miRNA

hsa-let-7g/Upstream/2222142; hsa-mir-12124/Downstream/287762;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/150342, chr3-CpG: 59/Downstream/34351

Upstream sequence

gagaccgtggaCggagagggagagggagagggagagggagagggagagggagagggagagggagagggagagggagagggagagggagagggagagggag

Downstream sequence

TATTTCATGGTAAACCCCTGAGAAGAAATTTTTGTGCTTTTAGCATGCTCACCATTTACAGGTAAGAAGACAAAAATACTGAGAAGAAAAAGATTTGCTC