Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004747
Fusion event
HBV-TNPO3 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
2399
Orient
-
Integrated sequence
CCACCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAA| |GGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTT
Host Sequence
Chromosome
chr7
Cytoband
q32.1
Reference genome
End
128690956/129050902 (Hg38)
Orient
-
Location type
Promoter TNPO3,intron
Target gene
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-34a-5p ; hsa-mir-30a-5p ; hsa-mir-24-3p ; hsa-mir-16-5p ; hsa-mir-423-3p ; hsa-mir-149-5p ; hsa-mir-15b-5p ; hsa-mir-17-5p ; hsa-mir-210-3p ; hsa-mir-6776-5p ; hsa-mir-7977 ; hsa-mir-143-5p ; hsa-mir-4284 ; hsa-mir-6499-3p ; hsa-mir-20b-3p ; hsa-mir-5693 ; hsa-mir-383-3p ; hsa-mir-2114-5p ; hsa-mir-5588-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-629-3p ; hsa-mir-665 ; hsa-mir-711 ; hsa-mir-7160-5p ; hsa-mir-3934-3p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-767-3p ; hsa-mir-4649-3p ; hsa-mir-3664-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-4695-5p ; hsa-mir-6808-5p ; hsa-mir-4684-5p ; hsa-mir-6771-3p ; hsa-mir-3675-3p ; hsa-mir-548c-3p ; hsa-mir-6516-3p ; hsa-mir-1257 ; hsa-mir-4286 ; hsa-mir-3607-5p ; hsa-mir-4760-3p ; hsa-mir-125a-5p ; hsa-mir-125b-5p ; hsa-mir-345-3p ; hsa-mir-4319 ; hsa-mir-4732-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-6515-3p ; hsa-mir-670-5p ; hsa-mir-6749-3p ; hsa-mir-7113-3p
Nearest miRNA
hsa-mir-10525/Upstream/842959; hsa-mir-10399/Downstream/719481;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/112200, chr7-CpG: 60/Downstream/3557
Upstream sequence
GTCCAAGGAGAGCTGGCGACTGAGTCACATGAGCACTTAGAGTGACAGTCCACTCTCCTCTAGATAAGCAACATCCATTCCTGAGCAGTCTGCTTTTACT
Downstream sequence
ggatccagcacaacaaagaggcaaagggaattccctaggacagtgtttatggaatcccatgacagtaattatccaacagacctagcgaaccaggccagac
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).