SLC2A13 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015568
Fusion event
HBV-SLC2A13 integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Adjacent tissue
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
23236287
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
-
Host Sequence
Chromosome
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
40172846/39779044 (Hg38)
End
40172846/39779044 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLC2A13
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-381-3p ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-4705 ; hsa-mir-6826-5p ; hsa-mir-449c-5p ; hsa-mir-34b-5p ; hsa-mir-2682-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/13904965; hsa-let-7i/Downstream/2544656;
Nearest TSS
ENST00000382841/Upstream/152826; ENST00000457989/Downstream/56716;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/335347, chr12-CpG: 108/Downstream/326116
Upstream sequence
CGTAGGTAATACATGCCTTTGTGACAACTAGAATA
Junction sequence
CGTAGGTAATACATGCCTTTGTGACAACTAGAATATGCTGAAAGTCCAAGAGTCCTCTTATATAAGACCTTGGGCAGGTTCCGGTGTG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.
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