LDLRAD3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007907
Fusion event
HBV-LDLRAD3 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
precore/core protein|Core and e antigen|
Start
2202
Orient
+
Integrated sequence
TCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTC| |TTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGAC
Host Sequence
Chromosome
chr11
Cytoband
p13
Reference genome
GRCh37/hg19
Start
36234557/36213007 (Hg38)
End
36234557/36213007 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11E
Target gene
LDLRAD3
miRNAs that regulate target gene
hsa-mir-744-5p
Nearest miRNA
hsa-mir-1343/Upstream/202803; hsa-let-7a-2/Downstream/7346649;
Nearest TSS
ENST00000527297/Upstream/49708; ENST00000531269/Downstream/60352;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/268103, chr11-CpG: 122/Downstream/163396
Upstream sequence
CCCAAAGGATGGCAGTGGTTAGGCAGATAGAAAACCTCTGCAGTCTTTTGGAATAAGAATGACTGAAAATTTCCAGGGAAGTGTCTACTTCATTCGGTCT
Downstream sequence
TCAGTTTAGAACTTTCTtctctctctgtctctctctcccccacccctctctttctctccccctcgctccctccctctctccctccctgttcctcttccac
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.
Curate