Basic Information
VIS ID
TVIS10009679
Fusion event
HBV-SMA5 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
1936
Orient
-
Integrated sequence
CTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTA| |CTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCC
Host Sequence
Chromosome
chr5
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
69797175/70501348 (Hg38)
End
69797175/70501348 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
SMA5
Nearest miRNA
hsa-mir-10397/Upstream/10797645; hsa-mir-103a-1/Downstream/1668119;
Nearest TSS
ENST00000502646/Upstream/51712; ENST00000511162/Downstream/399317;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/85867, chr5-CpG: 61/Downstream/399267
Upstream sequence
GTATATCTTTATCTTCATTTTCTTATTAGCTTTTAATAATACCTTCCCTTCTGCATGTAGATTTCTTTGTGTATATGTCTAAGTGTGATGAAGATAAGTG
Downstream sequence
TTTTTAAttttttttttttttttttttttttttttttgagatggagtctcactgtcacccaggctggagtgtagtgctgcgatcctgactcgctgcaacc
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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