Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005819
Fusion event
HBV-CDK13 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
1808
Orient
+
Integrated sequence
CAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCA| |GCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACAT
Host Sequence
Chromosome
chr7
Cytoband
p14.1
Reference genome
Start
End
40044258/40004659 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-133b ; hsa-mir-29b-2-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-664a-3p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-8061 ; hsa-mir-4760-5p ; hsa-mir-6794-3p ; hsa-mir-376a-5p ; hsa-mir-372-5p ; hsa-mir-888-5p
Nearest miRNA
hsa-mir-1183/Upstream/3085227; hsa-mir-10399/Downstream/3146236;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/52646, chr7-CpG: 109/Downstream/129623
Upstream sequence
CTGCACACTGCGGGGCCACTACCTAGGTGCCTGCTAGCTCCTTCCTTGCCCTCCCTCTTGCCTTCCTTCTGTCTTTACGAGACCTAGTGGTCCTGAGAGG
Downstream sequence
AGTTAGAGCATAAAGACAGTTCAATAACACTGGTTAAATGTTATGGGCTAATCTAAAATGAGTGTATTAGAACATATAAACATTAAAAAGCAAAAGTTAA
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).