Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005828
Fusion event
HBV-GRIN3A 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
2705
Orient
-
Integrated sequence
AGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTAT| |CCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTT
Host Sequence
Chromosome
chr9
Cytoband
q31.1
Reference genome
End
104469367/101707085 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7a-1/Upstream/3477868; hsa-mir-12126/Downstream/4893843;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/173135, chr9-CpG: 115/Downstream/30482
Upstream sequence
GAACACTCACCAGTGAATAAAATTTACTGAGTGGTTCACTGAAAATTCAAAACTTTCTAAGTGTTAGAAATGTATAGTTCAGGGTGGTTATGCCAATCAA
Downstream sequence
GAGAGTAAACAATCATGATGTTGAAATGTCAACTGTGCAAACAGCAGGTTAAAAATGTAGTGCAAAATTTCCCAGCAGTAAGTATTTTTTCTTATGGAGT
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).