Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012695
Fusion event
HBV-CDK5RAP3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
S protein|Polymerase|large S protein|middle S protein|
Start
332
Orient
-
Integrated sequence
TCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAA| |TCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATC
Host Sequence
Chromosome
chr17
Cytoband
q21.32
Reference genome
Start
End
46057832/47980466 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1180/Upstream/1007366; hsa-mir-10226/Downstream/52416;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/9009, chr17-CpG: 30/Downstream/31804
Upstream sequence
caagtgatcctcccgcctcagcctcctgagtagctgggactacaggcatacaccaccatgtttggctaattttaaacatttctgtagagacagggtctca
Downstream sequence
tcgtttcccaggctggtcttgaactcctggcctcaagcgatcctcctgccttggcctcccacagtgctggaattgcaagtgtgagccatcatgtacagcc
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.