Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005043
Fusion event
HBV-SLC22A23 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
2055
Orient
-
Integrated sequence
TGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGCCTTAGAGTCTCCGGAACATTGTTCACCTCACCA| |TACAGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTGGAAGACCCAGCATCCAGGGAATTAGTA
Host Sequence
Chromosome
chr6
Cytoband
p25.2
Reference genome
Start
End
3415455/3415221 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-3127-5p ; hsa-mir-4276 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-103a-2-5p ; hsa-mir-4772-5p ; hsa-mir-383-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-5190 ; hsa-mir-5094 ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-4796-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-20a-5p ; hsa-mir-526b-3p ; hsa-mir-93-5p ; hsa-mir-106a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-520b ; hsa-mir-520c-3p ; hsa-mir-520d-3p ; hsa-mir-520e ; hsa-mir-520a-3p ; hsa-mir-520f-3p
Nearest miRNA
hsa-mir-4645/Upstream/561114; hsa-mir-10398/Downstream/1733012;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/155717, chr6-CpG: 235/Downstream/40606
Upstream sequence
CTCAAAAGATTGAAAAATCCTTAAAATGGTGAAGAAGATTGCCAAGCCAAGAAAGGGCACTGAATGAATGTAAAGTCTTTCAAAGTGTGATTGTTTTAGG
Downstream sequence
AATGCTCTTTATCACTCAAGGTGCAGCTCCCTACAGACCCCACAGAGGCATCTCCTGGCCAAGGACTGCCCCTCTCCAAAATCCACGTGACATGTAGAGG
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).