Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000150
Fusion event
HBV-KCNQ5 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
End
1771
Integrated sequence
ACTCTCTGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTT| |GTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGC
Host Sequence
Chromosome
chr6
Cytoband
q13
Reference genome
Start
End
73087513 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-190a-5p ; hsa-mir-194-3p ; hsa-mir-574-5p ; hsa-mir-6515-5p ; hsa-mir-6867-5p ; hsa-mir-7847-3p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6738-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-6782-5p ; hsa-mir-5693 ; hsa-mir-675-3p ; hsa-mir-223-5p ; hsa-mir-543 ; hsa-mir-5096 ; hsa-mir-101-3p ; hsa-mir-139-5p ; hsa-mir-4999-3p ; hsa-mir-144-3p ; hsa-mir-6507-5p ; hsa-mir-4282
Nearest miRNA
hsa-mir-10398/Upstream/119760; hsa-mir-10524/Downstream/2340894;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/464132, chr6-CpG: 22/Downstream/70348
Downstream sequence
TTGGGGGAGGAGATTAGATTAAAGGTCTTT
Junction sequence
GGTCTTTCCTAGAGATATAAATTTGGAGTGTTGGGGGAGGAGATTAGATTAAAGGTCTTT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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).