Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005190
Fusion event
HBV-GNAI2 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
135
Orient
-
Integrated sequence
GAGTGAGGGGCCTATATTTTCCTGCTGGTGGCTCCAGTTCCGGAACAGTAAACCCTGTTCCGACTACTGCCTCACCCATATCGTCAATCTTCTCGAGGAC| |TGGGGACCCTGCACAGAACATGGAGAGCACAACATCAGGATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACA
Host Sequence
Chromosome
chr3
Cytoband
p21.31
Reference genome
Start
End
50281249/50243817 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-30d-5p ; hsa-mir-30a-5p ; hsa-mir-138-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-935 ; hsa-mir-877-3p ; hsa-mir-92b-3p ; hsa-mir-148b-3p ; hsa-mir-30e-5p ; hsa-mir-30c-5p ; hsa-mir-218-5p ; hsa-mir-30b-5p ; hsa-mir-4328 ; hsa-mir-6516-5p ; hsa-mir-583 ; hsa-mir-3150b-3p ; hsa-mir-4784 ; hsa-mir-625-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-6787-5p ; hsa-mir-6090 ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4749-5p ; hsa-mir-4706 ; hsa-mir-8072 ; hsa-mir-3960 ; hsa-mir-6889-5p ; hsa-mir-6777-5p ; hsa-mir-3937 ; hsa-mir-455-3p ; hsa-mir-222-3p ; hsa-mir-1237-5p ; hsa-mir-2467-3p ; hsa-mir-3126-5p ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-3196 ; hsa-mir-4488 ; hsa-mir-4530 ; hsa-mir-4697-5p ; hsa-mir-6772-5p ; hsa-mir-6816-5p ; hsa-mir-6873-5p ; hsa-mir-6875-5p ; hsa-mir-922 ; hsa-mir-92b-5p
Nearest miRNA
hsa-mir-12127/Upstream/16327; hsa-let-7g/Downstream/29419;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/5604, chr3-CpG: 67/Downstream/16191
Nearest cancer related gene
GNAI2(OG, No orient, 0)
Upstream sequence
tattttatatacccgtgtatataaaatatatatacttatatatattttatatacacgtgtatataaaatatatacttatatatattttatatacacgtgt
Downstream sequence
CTGGCTGGAAGTAACGGATCAGGCAGGACAGCAGGCAGACGGTGTGGGTGCGTGTGTGTTCTGCCTGTGCCTATGGGCCCTGGCTTTCGGGCCTCAATTC
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).