SLC6A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017595
Fusion event
HBV-SLC6A1 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
NA
Start
3291
Integrated sequence
TCATCCTCAGGCCATGCAGTGGAA| |
Host Sequence
Chromosome
chr3
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
11079259/11037573 (Hg38)
End
11079259/11037573 (Hg38)
Location type
3UTR
Target gene
SLC6A1
miRNAs that regulate target gene
hsa-mir-4745-3p ; hsa-mir-1538 ; hsa-mir-4285 ; hsa-mir-151b ; hsa-mir-151a-5p ; hsa-mir-211-3p ; hsa-mir-7845-5p ; hsa-mir-4779 ; hsa-mir-548e-5p ; hsa-mir-665
Nearest miRNA
hsa-mir-12127/Upstream/643011; hsa-let-7g/Downstream/4458666;
Nearest TSS
ENST00000440867/Upstream/5382; ENST00000413416/Downstream/99520;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/20208, chr3-CpG: 63/Downstream/116642
Upstream sequence
GCAGATTCCTTTGTCTCACTATGCAGGTTGTAAAACCATGttcatttattccatagacgtggagtgtctactctgtgatagatcttggagttgggaaggt
Downstream sequence
GGCCGCTTCTCCTGCAGTCTGTGGAGCGTCCTTGTCCCCGCCGCCGGAATGAATGAGCATTCTGCAGCCCGATGTCCCTGTCCCCTCCTCGCCGGGCCAT
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.
Curate