Basic Information
VIS ID
TVIS10007206
Fusion event
HBV-SHTN1 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
1942
Orient
-
Integrated sequence
ATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGG| |AGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCA
Host Sequence
Chromosome
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
118722542/116963031 (Hg38)
End
118722542/116963031 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
SHTN1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-106b-5p
Nearest miRNA
hsa-mir-107/Upstream/135463; hsa-mir-202/Downstream/204647;
Nearest TSS
ENST00000439456/Upstream/2700; ENST00000334549/Downstream/11139;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/113364, chr10-CpG: 92/Downstream/41686
Upstream sequence
TAAAAAGCATGACCCCATTTCCAAAACCAAAAGTCAAGTCACATGACGCAAAACAGAAATACTTTTAATATGTAAATTTATTTGCACATTTTGAATAATA
Downstream sequence
AAAGttttttttttttttttttttttttttttttttttttttttttttttttttttttgagacggagtctcgctctgtggcccaggctggagtgcagtgg
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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