ABCA10 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012260
Fusion event
HBV-ABCA10 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
1828
Orient
+
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr17
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
67150814/69154673 (Hg38)
End
67150814/69154673 (Hg38)
Orient
+
Location type
Intronic
Target gene
ABCA10
miRNAs that regulate target gene
hsa-mir-1281 ; hsa-mir-6785-3p
Nearest miRNA
hsa-mir-10226/Upstream/55017; hsa-mir-1250/Downstream/5593940;
Nearest TSS
ENST00000595228/Upstream/4221; ENST00000588110/Downstream/21108;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/553236, chr17-CpG: 116/Downstream/171895
Upstream sequence
accaccacacccagctaatttttaaattttttgtagagatggagtcttgctatgttgcccaggctggtctcgaaatcctggcctcaagcctcccgcctca
Downstream sequence
gcctctcaaagtattaggattagaggcacgagccaccgtggccACCTCAAAATAACATTTCTGAAACAAATGCTTAGTTAGCACCTTGAAAAATCTCCTG
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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