Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006157
Fusion event
HBV-ATXN7L1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1827
Orient
-
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr7
Cytoband
q22.3
Reference genome
End
105393012/105752566 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-513a-3p ; hsa-mir-513c-3p ; hsa-mir-3606-3p ; hsa-mir-218-5p ; hsa-mir-5689 ; hsa-mir-605-3p ; hsa-mir-101-5p ; hsa-mir-6882-5p ; hsa-mir-3910 ; hsa-mir-300 ; hsa-mir-381-3p ; hsa-mir-552-5p ; hsa-mir-302c-5p ; hsa-mir-4325 ; hsa-mir-5680 ; hsa-mir-1183 ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-548c-3p ; hsa-mir-200a-3p ; hsa-mir-141-3p ; hsa-mir-4282 ; hsa-mir-135a-5p ; hsa-mir-135b-5p ; hsa-mir-3660 ; hsa-mir-4315 ; hsa-mir-4526 ; hsa-mir-4790-5p ; hsa-mir-8074 ; hsa-mir-889-5p
Nearest miRNA
hsa-mir-10525/Upstream/3281035; hsa-mir-10399/Downstream/8900779;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/169163, chr7-CpG: 96/Downstream/123832
Upstream sequence
GGAAAAATTAAggccaggcgcagtggctcacacctgtatttccaacactttgggaggctgaggtgggtggatcacttgaggtcaggagttcgagaccagc
Downstream sequence
TagcttcccaggtggctcaaacatgtagttgaggctgagaagcactgGCTGTCAACTGTCACGTGGATGTGAACTTTGAGACTGCCCCAACCCAGGTCCC
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).