Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005011
Fusion event
HBV-USP53 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
1783
Orient
+
Integrated sequence
CAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTG| |TAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCC
Host Sequence
Chromosome
chr4
Cytoband
q26
Reference genome
End
120179606/119258451 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-30b-5p ; hsa-mir-16-5p ; hsa-mir-186-3p ; hsa-mir-323a-5p ; hsa-mir-559 ; hsa-mir-548b-5p ; hsa-mir-548a-5p ; hsa-mir-548c-5p ; hsa-mir-548d-5p ; hsa-mir-876-3p ; hsa-mir-374b-3p ; hsa-mir-548j-5p ; hsa-mir-548h-5p ; hsa-mir-548i ; hsa-mir-548w ; hsa-mir-548y ; hsa-mir-548o-5p ; hsa-mir-548ab ; hsa-mir-548ad-5p ; hsa-mir-548ae-5p ; hsa-mir-4456 ; hsa-mir-548ak ; hsa-mir-4524a-5p ; hsa-mir-548am-5p ; hsa-mir-3973 ; hsa-mir-4690-3p ; hsa-mir-548ap-5p ; hsa-mir-4524b-5p ; hsa-mir-548aq-5p ; hsa-mir-548ar-5p ; hsa-mir-548as-5p ; hsa-mir-548au-5p ; hsa-mir-5685 ; hsa-mir-548ay-5p ; hsa-mir-548bb-5p ; hsa-mir-545-3p ; hsa-mir-3120-3p ; hsa-mir-6504-3p ; hsa-mir-6792-5p ; hsa-mir-6806-5p ; hsa-mir-646 ; hsa-mir-6838-5p ; hsa-mir-503-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-6757-3p ; hsa-mir-15a-5p ; hsa-mir-497-3p ; hsa-mir-141-3p ; hsa-mir-200a-3p
Nearest miRNA
hsa-mir-12113/Upstream/4601597; hsa-mir-1305/Downstream/6248808;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/45317, chr4-CpG: 40/Downstream/42020
Upstream sequence
CTTTATAAACTGACTAATTAGTCTATGGATAGTTTACAGAATATAGCAGTTGGAAAAAACATTTAATTACTTAGAAATGTATGTTTCTTGTAATTAAATA
Downstream sequence
AGTGTTTCAGCTTACATTACATTCCTTTTTGGAAATATTTAAATAGTTGTTTAAgtattagtctgttctcatgctgctaataaagacatactcaagactg
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).