VISDB Viral Integration Site DataBase

VIS ID

TVIS10008177

Fusion event

HBV-SYNE1 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

1923

Orient

+

Integrated sequence

TTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAA| |GAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAG

Chromosome

chr6

Cytoband

q25.2

Reference genome

Start

End

152487929/152166794 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-148b-3p ; hsa-mir-9-5p ; hsa-mir-124-3p ; hsa-mir-26b-5p ; hsa-let-7b-5p

Nearest miRNA

hsa-mir-10398/Upstream/1064018; hsa-mir-1202/Downstream/2686566;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/358158, chr6-CpG: 26/Downstream/135350

Upstream sequence

GTTTGTGACTGGAGTGCTACCTGAGTAAATTATCATGATTACATGAAAAGCAATTAAGAGAAGAAGGTCAAAGGACCAACCTCTAATCACTAAGTTTGGT

Downstream sequence

GTGTGCATGTGTGCTGGGGGAGCAGAGGTGAGCCTGTAGGGCATGGGTAGTAGGATTAATAAGCCTTGGCTTATTAAACTTGACATTTATTTGCAGGACA