STX18 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009646
Fusion event
HBV-STX18 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
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
1936
Orient
-
Integrated sequence
CTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTA| |CTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCC
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
4449319/4447592 (Hg38)
End
4449319/4447592 (Hg38)
Orient
-
Location type
Intronic
Target gene
STX18
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-4800/Upstream/2197436; hsa-mir-12113/Downstream/1475683;
Nearest TSS
ENST00000502981/Upstream/20979; ENST00000499430/Downstream/14345;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/59400, chr4-CpG: 72/Downstream/94118
Upstream sequence
atccagaccatcctgaacaacatggtgaaaccccgtctctactaaaaaatacaaaaaaattagccgggcgtggtggtgggcgcctgtagtcccagctact
Downstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaTGGGGCTCTGACTATCTTTCTTGTTAGAGTTACTGCTTtatatgtaagtgctaactca
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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