LMO3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010592
Fusion event
HBV-LMO3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|precore/core protein|
Start
1837
Orient
+
Integrated sequence
GGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCC| |TAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTAC
Host Sequence
Chromosome
chr12
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
16716372/16563438 (Hg38)
End
16716372/16563438 (Hg38)
Orient
+
Location type
Intronic
Target gene
LMO3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/3647520; hsa-let-7i/Downstream/1109861;
Nearest TSS
ENST00000382841/Upstream/180611; ENST00000541892/Downstream/3973;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/651838, chr12-CpG: 131/Downstream/2565953
Nearest cancer related gene
LMO3(OG, No orient, 0)
Upstream sequence
TCTGGGAAAATAAACAAAGTATTATTTTATAAAATGGGATTTTCAAATGTATAATGTTATCCTTTGGTTTCCAAACATGACATTTGGGTTTCGAGGCAAA
Downstream sequence
AGAATTTTCATATATGTCAATTAAGCATAAGACAGGCATAGTTCTCCTTTGTAAGATTTTTTTTCAGATTGTGCCTAGGAAATATTTAAAAACAGTCTCT
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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