Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000135
Fusion event
HBV-PRPF8 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
End
1829
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTT
Host Sequence
Chromosome
chr4
Cytoband
q31.21
Reference genome
Start
End
143725667 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-532-3p ; hsa-mir-296-3p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-324-5p ; hsa-mir-361-5p ; hsa-mir-186-5p ; hsa-mir-140-5p ; hsa-mir-27b-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-196a-5p ; hsa-mir-106a-5p ; hsa-mir-93-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-mir-17-5p ; hsa-mir-16-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-mir-381-3p ; hsa-mir-409-3p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-12113/Upstream/382132; hsa-mir-1305/Downstream/2682916;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/24602, chr4-CpG: 91/Downstream/919423
Downstream sequence
TCTGCGCACCAGCACCATGCAACTTTTTCA
Junction sequence
ATGGATATGTTGAATTTGAGGTTTTCATGGTCTGCGCACCAGCACCATGCAACTTTTTCA
* 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).