Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017950
Fusion event
HBV-ORM1 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Region type
pre-S1/pre-S2/S;Polymerase;
Start
431
Integrated sequence
CACTCACCAACCTCTTGTCCTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCT| |TCTTGTTGGTTCTTCTGGACTACCAAGGTATGTTGCCCGTTTGTCCTCTACTTCCAGGAACATCAACTACCAGCACGGGACCATGCAAGACCTGCACGAT
Host Sequence
Chromosome
chr9
Cytoband
q32
Reference genome
End
117086049/114323769 (Hg38)
Location type
Exonic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-let-7a-1/Upstream/114240; hsa-mir-12126/Downstream/5921210;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/155681, chr9-CpG: 80/Downstream/74090
Upstream sequence
GAGCCGCCCTGTGCCTCATGCGGCGACCGAGGCGCCCTCGGGAGACGGGCCCTGTCGGGTGTCGAGACGCGAACACGACCCAATGCCAAGAACGGGCGGT
Downstream sequence
CATACTAGAACTATAAGAATTTAGGGAGCAGCGGGATACAAAACAAATATATTAAAATAACAGATTTCggccaggtgcggtggctcacacctgtaatccc
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.