NAGPA _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016443
Fusion event
HBV-NAGPA integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1722
End
1757
Orient
-
Integrated sequence
GTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAG
Host Sequence
Chromosome
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
5081541/5031540 (Hg38)
End
5081576/5031575 (Hg38)
Orient
-
Location type
Intronic
Target gene
NAGPA
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-193a-3p
Nearest miRNA
hsa-mir-1225/Upstream/360150; hsa-mir-11401/Downstream/600892;
Nearest TSS
ENST00000527434/Upstream/889; ENST00000632058/Downstream/1763;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/43210, chr16-CpG: 105/Downstream/1668
Upstream sequence
gctctgcacagtaaagttgctttcccaagtgctcagaacaagagacatactttataaatgacccaggttttctcttgttccaatgtctttactctttgtc
Downstream sequence
tatatattcaatataagcctatcttcctccccatgaatccccagtacccagaatagtgctgggcacaaagtagctgctcaatacttgttgaaagacttaa
Target sequence
ttcttttcagcatattctataactattttttgtcc
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate