Basic Information
VIS ID
TVIS10004648
Fusion event
HBV-LINC01942 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1884
Orient
-
Integrated sequence
AGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCT| |TGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGA
Host Sequence
Chromosome
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
173125603/173698600 (Hg38)
End
173125603/173698600 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
LINC01942
Nearest miRNA
hsa-mir-10397/Upstream/351064; hsa-mir-1229/Downstream/1053134;
Nearest TSS
ENST00000502646/Upstream/9141; ENST00000518141/Downstream/21092;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/81708, chr5-CpG: 23/Downstream/189328
Junction sequence
TGCA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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