SEMA3A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017030
Fusion event
HBV-SEMA3A integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
30070724
Virus Sequence
Virus name
HBV
Subtype
B
Reference genome
NC_003977
Start
286
End
377
Integrated sequence
GAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGG
Host Sequence
Chromosome
chr7
Cytoband
q21.11
Reference genome
GRCh37/hg19
Start
83930485/84301169 (Hg38)
End
83930581/84301265 (Hg38)
Location type
Intronic
Target gene
SEMA3A
miRNAs that regulate target gene
hsa-mir-223-3p
Nearest miRNA
hsa-mir-10525/Upstream/8385900; hsa-mir-10399/Downstream/7902750;
Nearest TSS
ENST00000635602/Upstream/105724; ENST00000450977/Downstream/71003;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/551332, chr7-CpG: 31/Downstream/638657
Upstream sequence
AAGCAGAGTTGCTCTTTAGTGGCAGTCAGGCATCTGTCCTGCAAAGTGAGATGTCTGCAATGGAGTCAGTAGAGTTCCAGGAGAGTCTGAAATCACAGCA
Downstream sequence
gcttttcaaaagaagctgaaaaagaaaatcacagaatggtagaaaatattcacaaaacacacacacacatgcatatatcaaagaatttgtcttcagaatg
Target sequence
taaccttggggtaagcaaaggcttcctagtactcaatagcacaagtaaaaaaataagaagaaaaacatattgtacttcatcaataataaaattttt
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.
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