Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004907
Fusion event
HBV-SLC12A3 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
1598
Orient
-
Integrated sequence
ATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCT| |GCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTG
Host Sequence
Chromosome
chr16
Cytoband
q13
Reference genome
Start
End
56902317/56868405 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1273e ; hsa-mir-4524a-3p ; hsa-mir-4329 ; hsa-mir-5680 ; hsa-mir-2355-3p ; hsa-mir-629-3p ; hsa-mir-676-3p ; hsa-mir-6867-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-623 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-136-5p ; hsa-mir-6780b-3p ; hsa-mir-4780
Nearest miRNA
hsa-mir-1225/Upstream/9804; hsa-mir-11401/Downstream/35859;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/137840, chr16-CpG: 80/Downstream/63417
Junction sequence
A
* 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).