HMG20A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014119
Fusion event
HBV-HMG20A 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
1941
Orient
+
Integrated sequence
CATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTG| |GAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGC
Host Sequence
Chromosome
chr15
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
77752691/77460349 (Hg38)
End
77752691/77460349 (Hg38)
Orient
-
Location type
Intronic
Target gene
HMG20A
miRNAs that regulate target gene
hsa-mir-30c-5p ; hsa-mir-20a-5p
Nearest miRNA
hsa-mir-10393/Upstream/1698034; hsa-mir-11181/Downstream/1749439;
Nearest TSS
ENST00000557528/Upstream/2132; ENST00000558845/Downstream/17774;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/40204, chr15-CpG: 128/Downstream/153659
Upstream sequence
gaagtatagaattctagatatatttgaaggtataccaaacagaatttgcctgaaagaaaggatgagcacaatgtaagaagggagaaaaaaagcagtcaaa
Downstream sequence
ggcaactcaaaagttttggccaaagcaactggagggatggagttgccattagcttagatggggaaaactgaacaagtgtgggagggaattgtaggagctc
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