PRKDC _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009206
Fusion event
HBV-PRKDC integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|precore/core protein|
Start
1828
Orient
+
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr8
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
48727345/47814784 (Hg38)
End
48727345/47814784 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRKDC
miRNAs that regulate target gene
hsa-mir-101-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-124-1/Upstream/4918509; hsa-mir-10400/Downstream/13900004;
Nearest TSS
ENST00000518652/Upstream/30645; ENST00000520994/Downstream/50008;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/50236, chr8-CpG: 28/Downstream/16496
Upstream sequence
agtgagccgagatggcagcagtacagtccagcttcggctccgcatgagagggagaccgtggggatagggatagggatagggataggggtaggggtagggg
Downstream sequence
cagcagtttttctttatacaaattgacaagcagattctaaaatgtaaatagaaatgcagatcaactaaaataaagtagttttcataaagaaagttgagcc
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.
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