NALCN _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019892
Fusion event
HBV-NALCN integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1831
Integrated sequence
CTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACC| |TCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGG
Host Sequence
Chromosome
chr13
Cytoband
q33.1
Reference genome
GRCh37.55
Start
101876819/101224468 (Hg38)
End
101876820/101224469 (Hg38)
Location type
Intron31
Fragile sites / regions
FRA13D
Target gene
NALCN
miRNAs that regulate target gene
hsa-mir-122-5p
Nearest miRNA
hsa-mir-1297/Upstream/1581319; hsa-mir-1267/Downstream/743173;
Nearest TSS
ENST00000623511/Upstream/81247; ENST00000474233/Downstream/174685;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/548999, chr13-CpG: 117/Downstream/191296
Upstream sequence
taaaattgaatgtatttattatgtacaacatgatattttgaATAATAAAGATTTGTAATCATGTTAAAAAAAAGAGCTGTAGCTAACACAAACCCACATG
Downstream sequence
accactcctcactgctctcaaactagaatgctctataaaccttacacaatccctcttgctgcaaagctaactcttcctttgctccagagtgctggatatg
Target sequence
a
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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