NALCN _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006380
Fusion event
HBV-NALCN integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1792
Integrated sequence
GGGGACGAGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGC| |AGCACAGCCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAA
Host Sequence
Chromosome
chr13
Cytoband
q33.1
Reference genome
GRCh38
Start
101380239 (Hg38)
End
101380239 (Hg38)
Location type
Intron
Fragile sites / regions
FRA13D
Target gene
NALCN
miRNAs that regulate target gene
hsa-mir-122-5p
Nearest miRNA
hsa-mir-1297/Upstream/1737090; hsa-mir-1267/Downstream/587403;
Nearest TSS
ENST00000623511/Upstream/237018; ENST00000474233/Downstream/18915;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/704770, chr13-CpG: 117/Downstream/35526
Upstream sequence
AGAATTCAAGACTAACAA
Junction sequence
AGAATTCAAGACTAACAAATGCNNNCAGCNTCNNAGNA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
Curate