Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012694
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
X protein|
Start
1741
Orient
+
Integrated sequence
GCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAG| |TTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAAT
Host Sequence
Chromosome
chr17
Cytoband
q21.32
Reference genome
Start
End
46057738/47980372 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1180/Upstream/1007272; hsa-mir-10226/Downstream/52510;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/8915, chr17-CpG: 30/Downstream/31898
Upstream sequence
tttcttcctttttttttaaaaagagtttctctgtcgcccagtctggagtgcagtgcagcaatcatagctcactataacctcaaactcctgggctcaagtg
Downstream sequence
atcctcccgcctcagcctcctgagtagctgggactacaggcatacaccaccatgtttggctaattttaaacatttctgtagagacagggtctcatcgttt
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.