SEMA3C _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014806
Fusion event
HBV-SEMA3C integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27064257
Virus Sequence
Virus name
HBV
Reference genome
AP011098.1
Start
3005
Orient
+
Integrated sequence
ATCCTCTGGGATTCTTTCCCGATCACCAGTTGGACCCTGCGTTCGGAGCCAACTCAAACAATCCAGATTGGGACTTCAACCCCAACAAGGATCACTGGCC| |AGAGGCAAATCAGGTAGGAGCGGGAGCATTCGGGCCAGGGTTCACCCCACCACACGGCGGTCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATATTGACA
Host Sequence
Chromosome
chr7
Cytoband
q21.11
Reference genome
GRCh37/hg19
Start
80512272/80882956 (Hg38)
End
80512272/80882956 (Hg38)
Orient
+
Location type
Intronic
Target gene
SEMA3C
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-375 ; hsa-mir-98-5p
Nearest miRNA
hsa-mir-10525/Upstream/4967687; hsa-mir-10399/Downstream/11321059;
Nearest TSS
ENST00000635602/Upstream/64547; ENST00000431501/Downstream/35473;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/747383, chr7-CpG: 59/Downstream/36034
Upstream sequence
catcaaatgttttgttacacttattagtaattCCTCTTTATAGATTCTAAATTTGTTTCTCTGCCTTATCTGCTAAGGTCTTTTTTATTCTTGTTGATCT
Downstream sequence
aacaacaacaacaaACTAAAGGTAAATACACCTGAAAGATACAAAAGAGGATGCCATGAGATACACCTGAATCTCTGAGGAAACACGTTCTCTCTCTTTC
Reference
Fujimoto, A., et al. Whole-genome mutational landscape and characterization of noncoding and structural mutations in liver cancer. Nat Genet ,2016,48(5): 500-509.
Curate