TSGA10 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004943
Fusion event
HBV-TSGA10 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1891
Orient
-
Integrated sequence
AATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGG| |CTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCC
Host Sequence
Chromosome
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
99701269/99084806 (Hg38)
End
99701269/99084806 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA2S ; FRA2A
Target gene
TSGA10
miRNAs that regulate target gene
hsa-mir-26b-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/2286453; hsa-mir-10b/Downstream/2224644;
Nearest TSS
ENST00000437798/Upstream/5878; ENST00000496794/Downstream/33973;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/147438, chr2-CpG: 92/Downstream/56086
Upstream sequence
AGCAGGTGTATATGAGGCAGAAAGTGATAGTGGTTTTATGGCATCAGCGTCTCTCCCATCCCCCCATACCATGAACTCAAAGAGGCTGATATTGTTAGTC
Downstream sequence
ACCCAAGAGCATTGTTTTACACAATAACTTATATCTCCATGGCAAAATGTGTCCCAGGGCCAAAATTATAAGACATTTGAGATGGCCAGTCATTTAAAAA
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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