SLC10A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019982
Fusion event
HBV-SLC10A1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2013
PubMed ID
24085110
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Host Sequence
Chromosome
chr14
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
70245899/69779182 (Hg38)
End
70246077/69779360 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA14C
Target gene
SLC10A1
Nearest miRNA
hsa-mir-208a/Upstream/2337252; hsa-mir-1185-1/Downstream/2737460;
Nearest TSS
ENST00000550708/Upstream/8301; ENST00000555917/Downstream/17929;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/11231, chr14-CpG: 32/Downstream/70770
Upstream sequence
aggaggcggagcttgcagtgagcggagattgcaccactgcactccagcctgggcgacagagagagactccatctcaaaaaaaaaaaaaaaaaaaaaaaGA
Downstream sequence
CTGGGAATGAAGACAAGAAAAGGCAATTAGAAGAGTTGGGGATAGAGAGGAACAGAGGTGGGGAAGCACAGGTAGAAATTGGAGGTGGGAAACATTGCAA
Target sequence
GTCCATTGAGGCAGAAGAGAGCAGAGAGAACATAACCCAGCAGAAAGCCAATAAAAGGCATCAGGGAGGAGGTGGCAATCAAGAGTGGTGTCATGGCAAACATGATGCTCTTCCCCACATTGATGGCAGAGAGAACTGTGACGGCCACACTGCACAAGAGAATGATGATCATCCCTCC
Reference
Tang, K. W., et al.The landscape of viral expression and host gene fusion and adaptation in human cancer. Nat Commun,2013, 4: 2513.
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