SLC10A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020463
Fusion event
HBV-SLC10A1 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
133
End
1229
Orient
+
Integrated sequence
ACTGGGGACCCTGCACCGAACATGGAGAGCACAACATCAGGATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCACAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCACCCACGTGTCCTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGCTATCGCTGGATGTGTCTGCGG
Host Sequence
Chromosome
chr14
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
70245440/69778723 (Hg38)
End
70246488/69779771 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA14C
Target gene
SLC10A1
Nearest miRNA
hsa-mir-208a/Upstream/2336793; hsa-mir-1185-1/Downstream/2737049;
Nearest TSS
ENST00000550708/Upstream/7842; ENST00000555917/Downstream/17518;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/10772, chr14-CpG: 32/Downstream/70359
Upstream sequence
agaaggtacagaattctttctgcagaaatagataggatagaatagatgaaataaatcttactttcattgggcctgaaaggatagagaaaatttggatcat
Downstream sequence
TGGATAGCAGACTTTCAGTGAAGTGTTACGTGAGGCTATTCAGGACTCCTGCAAAATGGATATTATTTAAAAGTCAAGTATTTTTGGAACTTATATACAC
Target sequence
TTTCAAGTCTAAAGTCTCTTGTCCAGTTAGTGCATCTGAACATATTGCCAGGAAAGTGTCTTGCCCAGATTTCAGGTTCCTAGCTTCTTATTCGTTTCCTGAAAGACTAGGACAAGAATGAAGCCCATGGGACAGTGGGACCTAAAATAATACCTATCTccaggcatgcagtggctcacacctgtaatcctagcactttggaaggctgaggcaggtggatcacttgagctcattagttcaaaactagcctgggca
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
Curate