PRKG1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011836
Fusion event
HBV-PRKG1 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
precore/core protein|Core and e antigen|
Start
2206
Orient
+
Integrated sequence
GCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGT| |GGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACC
Host Sequence
Chromosome
chr10
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
52759921/51000161 (Hg38)
End
52759921/51000161 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
PRKG1
miRNAs that regulate target gene
hsa-mir-20a-5p ; hsa-mir-218-5p ; hsa-mir-3591-5p ; hsa-mir-1273e ; hsa-mir-921 ; hsa-mir-3606-5p
Nearest miRNA
hsa-mir-1265/Upstream/2014574; hsa-mir-107/Downstream/299412;
Nearest TSS
ENST00000439456/Upstream/9067; ENST00000645790/Downstream/68392;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/8156, chr10-CpG: 96/Downstream/73618
Upstream sequence
GAGAAAAATATCACTCCAAAATACTCAATCCAATATCCTGTGCTTTACTCTGGCAGGTTTAACTGTGGTGCCATGACAATGGTGTGTATTTGATTAGTTG
Downstream sequence
TAAGGTAGAAATGAGTAAATAATGGCTTAAAAATCAAAATTCATGAATAATTTGTTTCTTAAAAAATAAGATTGCGTGCACTCACAGGCACCTCCCGAGG
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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