Basic Information
VIS ID
TVIS10013809
Fusion event
HBV-LINC01239 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
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
1965
Orient
+
Integrated sequence
TCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCT| |GACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCAC
Host Sequence
Chromosome
chr9
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
22760048/22760049 (Hg38)
End
22760048/22760049 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA9C
Target gene
LINC01239
Nearest miRNA
hsa-mir-101-2/Upstream/1247864; hsa-let-7a-1/Downstream/6103577;
Nearest TSS
ENST00000422679/Upstream/77579; ENST00000448570/Downstream/7126;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/312353, chr9-CpG: 156/Downstream/1060644
Upstream sequence
AAACCCATATCCTGTTTTAAATGTTAAGTCTGTATGTTTTAAAGCTTAGAGTTTTAACAGTTTATGCTCCTTATAGATAGATGACATAACCTCTACAAAC
Downstream sequence
agggaggattccctctttttctattgattggaatagtttcagaaggaatggtaccagctcctccttgtacctctggtagaattcggctgtgaatccgtcc
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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