Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004746
Fusion event
HBV-VKORC1L1 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
2165
Orient
-
Integrated sequence
AGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTGGAAGACCCAGCATCCAGGGAATTAGTAGTCAGCTATG| |TCAATGTTAATATGGGCCTAAAAATCAGACAACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGAGAAACTGTTCTTGAGTATTTGGTGTCTTT
Host Sequence
Chromosome
chr7
Cytoband
q11.21
Reference genome
Start
End
65415720/65950733 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-6882-5p ; hsa-mir-1264 ; hsa-mir-3611 ; hsa-mir-1257 ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-4789-5p ; hsa-mir-4766-3p ; hsa-mir-466 ; hsa-mir-656-5p ; hsa-mir-758-5p ; hsa-mir-3908 ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-4661-5p ; hsa-mir-4789-3p ; hsa-mir-4643 ; hsa-mir-3133 ; hsa-mir-186-5p ; hsa-mir-552-5p ; hsa-mir-4328 ; hsa-mir-6512-5p ; hsa-mir-140-3p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-3686 ; hsa-mir-4775 ; hsa-mir-4742-3p ; hsa-mir-664a-5p ; hsa-mir-4794 ; hsa-mir-4735-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-590-3p ; hsa-mir-3934-5p ; hsa-mir-5095 ; hsa-mir-552-3p ; hsa-mir-6504-3p ; hsa-mir-6807-5p ; hsa-mir-6872-3p ; hsa-mir-7151-3p
Nearest miRNA
hsa-mir-1183/Upstream/1271557; hsa-mir-10399/Downstream/1163589;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/76692, chr7-CpG: 66/Downstream/31051
Upstream sequence
accctaaacttcagcatcacacaatatacccaggtaacaaatctacacacacattccctctgaatctaaaatagaagttgaagttataaaaaaaaaaATC
Downstream sequence
tatcctagaaagataaagacactatttagtgaaaaaagcaaATTTTGGTATAATAGGTATAGGATAAACGTGTTTGTATACATGCATGTAAATGCATAGA
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).