PRKG1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005217
Fusion event
HBV-PRKG1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1820
Orient
-
Integrated sequence
GTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAA
Host Sequence
Chromosome
chr10
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
53699725/51939965 (Hg38)
End
53699725/51939965 (Hg38)
Orient
+
Location type
Intron
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/640310; hsa-mir-107/Downstream/2667909;
Nearest TSS
ENST00000439456/Upstream/240374; ENST00000646354/Downstream/106783;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/239966, chr10-CpG: 64/Downstream/374264
Upstream sequence
ATCCTGTTTACATTCTCTTAGTTATTCCTATAGGTGACTTAGATACTCAGAAAAACTGAGACTATTTGTTGAATTCCTAGAAAATTTAAAACATTCAATG
Downstream sequence
AATGGAGTCTTTTATATACTTGATTTGTTTCATACTGCCTTTGAATTAAAATTAATGAAAAATTTCTATAGCCTTATAGCTGCCCCTAGTCCCCACCAGA
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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