Basic Information
VIS ID
TVIS10014490
Fusion event
HBV-SYNE3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|Core and e antigen|
Start
2273
Orient
+
Integrated sequence
CTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGT| |GTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGA
Host Sequence
Chromosome
chr14
Cytoband
q32.13
Reference genome
GRCh37/hg19
Start
95877873/95411536 (Hg38)
End
95877873/95411536 (Hg38)
Orient
+
Location type
Intronic
Target gene
SYNE3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-132-3p ; hsa-mir-328-3p
Nearest miRNA
hsa-mir-1260a/Upstream/273550; hsa-mir-1185-1/Downstream/4697883;
Nearest TSS
ENST00000550708/Upstream/81952; ENST00000554161/Downstream/44653;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/50932, chr14-CpG: 100/Downstream/104625
Nearby gene
SYNE3(+5958) ;
Upstream sequence
CAGTAGCTTGGAGTAGTTTTGAGGACTGTGAGGTCCATTGGGTCAGAGAGTGGGGAGTGGGAAAGGTTGGTGATCAACTATTTTGATGTCTGTCTTGGAA
Downstream sequence
GCAGCAAGGGCTGTAGTTGCCCACACCTCCCTCCAATGCTGACCTAGACTGGTGACAATGAGATTGGGGTGAGAATTAGCTGAGTGCCCATGAGAGAGGG
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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