PKP4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000100
Fusion event
HBV-PKP4 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1827
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT
Host Sequence
Chromosome
chr2
Cytoband
q24.1
Reference genome
GRCh38.p7
Start
158618268 (Hg38)
End
158618268 (Hg38)
Orient
+
Location type
Intronic
Target gene
PKP4
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-218-5p ; hsa-mir-449a
Nearest miRNA
hsa-mir-128-1/Upstream/7249857; hsa-mir-10b/Downstream/568567;
Nearest TSS
ENST00000437798/Upstream/40927; ENST00000494945/Downstream/14206;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/159967, chr2-CpG: 146/Downstream/350074
Downstream sequence
GGTCTGCGCACCAGCACCATGCAACTTTTT
Junction sequence
TTATTTTATATTTACTTAAAGATAGGTCAGGTCTGCGCACCAGCACCATGCAACTTTTT
* 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).
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