Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005201
Fusion event
HBV-UBR4 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
2295
Orient
-
Integrated sequence
AACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGAGAAACTGTTCTTGAGTATTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCCGCTTA| |CAGACCACCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGA
Host Sequence
Chromosome
chr1
Cytoband
p36.13
Reference genome
Start
End
19523848/19197354 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-128-3p ; hsa-mir-34a-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-296-3p ; hsa-mir-378a-5p ; hsa-mir-185-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-1249-5p ; hsa-mir-3173-3p ; hsa-mir-3190-3p ; hsa-mir-3202 ; hsa-mir-363-5p ; hsa-mir-4419a ; hsa-mir-4457 ; hsa-mir-4471 ; hsa-mir-4510 ; hsa-mir-4533 ; hsa-mir-4773 ; hsa-mir-4779 ; hsa-mir-5700 ; hsa-mir-605-3p ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6745 ; hsa-mir-6760-5p ; hsa-mir-6797-5p ; hsa-mir-6804-5p ; hsa-mir-6878-5p ; hsa-mir-6891-5p ; hsa-mir-8059
Nearest miRNA
hsa-mir-12136/Upstream/300206; hsa-mir-101-1/Downstream/1436325;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/239965, chr1-CpG: 83/Downstream/12303
Upstream sequence
ATGAATGAAAGCTGGAACATGACAGAGATCAACAAGTGTCTCTTAGAATCATTCACTTCTATAATGTGACAGTTAAAGAAATTATCAGCATGggcccggc
Downstream sequence
acagtggctcacgcctataattccgacacttcaggaggccaaggcaggaggattgcttgagcccaggagttcaagaccagcctgggcaacaaggcaaaac
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).