Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006193
Fusion event
HBV-ELOVL7 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
1790
Orient
+
Integrated sequence
CGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCAT| |AAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTG
Host Sequence
Chromosome
chr5
Cytoband
q12.1
Reference genome
Start
End
60099173/60803346 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-3977 ; hsa-mir-1283 ; hsa-mir-520f-3p ; hsa-mir-302c-3p ; hsa-mir-4803 ; hsa-mir-6818-3p ; hsa-mir-548s ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-3926 ; hsa-mir-5189-3p ; hsa-mir-4786-5p ; hsa-mir-3190-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-6849-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p
Nearest miRNA
hsa-mir-10397/Upstream/1099643; hsa-mir-103a-1/Downstream/11366121;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/59338, chr5-CpG: 113/Downstream/40186
Upstream sequence
gaggaggcggagctggaaggtgaaggggcaggacgggTGCCCGGGTCCCCAGTCCCTCCGCCACGTGGGAAGCGCGGTCCTGGGCGTCTGTGCCCGCGAA
Downstream sequence
ACACAGAGATTACTCTGCAGTGTCATTTCAAGTATAAACTGAAGCTGACAGCCTGAGCCTATCCAAGTGATCTCTACCTTTCCTGCTGATAGGTGCTCAG
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).