Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017422
Fusion event
HBV-PAX3 integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
B
Reference genome
Start
2482
End
2572
Integrated sequence
TTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTA
Host Sequence
Chromosome
chr2
Cytoband
q36.1
Reference genome
End
223120749/222256030 (Hg38)
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-206 ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-324-5p ; hsa-let-7e-5p ; hsa-let-7b-5p ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-555 ; hsa-mir-216a-5p ; hsa-mir-489-3p ; hsa-mir-1287-3p ; hsa-mir-4268 ; hsa-mir-4694-3p ; hsa-mir-613
Nearest miRNA
hsa-mir-10b/Upstream/2349368; hsa-mir-1244-1/Downstream/2754431;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/681712, chr2-CpG: 41/Downstream/34977
Nearest cancer related gene
PAX3(OG, No orient, 0)
Upstream sequence
GGGCCAGAATCTGCCAAGGCCCGTGTCCCAGGGTGGGGCCGATGGAACCCAAGGTAGAGGGAGTCAGCGGTCCACACAGAGAgagctccagccttaggac
Downstream sequence
ggtgctgggattataggcgtgagccaccacgcccagccCCGATTATATTATTTACTCAAAGTTGTTAGCACCTACCTTGAGGATGAGCTTTGTTTTGTAC
Target sequence
tttttttgtatttttagtagagacggggtttcagcatgtgttagccaggatggtctcgatttcctgacctcgtgatctgcccgctttgccctcccat
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.