PRKCE _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016274
Fusion event
HBV-PRKCE integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1715
End
1750
Orient
-
Integrated sequence
ACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGG
Host Sequence
Chromosome
chr2
Cytoband
p21
Reference genome
GRCh37/hg19
Start
46122257/45895118 (Hg38)
End
46122292/45895153 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PRKCE
miRNAs that regulate target gene
hsa-mir-205-5p ; hsa-mir-1-3p ; hsa-mir-31-5p ; hsa-mir-96-5p ; hsa-mir-21-5p ; hsa-mir-342-3p ; hsa-mir-107 ; hsa-mir-146a-5p
Nearest miRNA
hsa-mir-1301/Upstream/10423632; hsa-mir-10b/Downstream/1482522;
Nearest TSS
ENST00000437798/Upstream/197136; ENST00000489067/Downstream/82942;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/242572, chr2-CpG: 289/Downstream/401497
Nearest cancer related gene
PRKCE(OG, No orient, 0)
Upstream sequence
attacaggcgtgagccaccgcgcccggccGATCTTTTCTTTCAACTTTTAGATATCTGTTCTCTTGAAGGCCAGGGCCCACCGCAGAACAGAATCAGGGC
Downstream sequence
CTTGAGAAAGGAAGGAAGTTTTTTTCAGGCGGAGTGGGTTGGATGAGGCACATGTTTCTAGACTACTCTCCATTTTATTTTCTCACTTCTGGCCACTGTC
Target sequence
CGTGGTAGGGAGAATGAAAAGGCGCCCAGGTGTCT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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