TMEM53 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017775
Fusion event
HBV-TMEM53 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
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
pre-S1/pre-S2/S;Polymerase;
Start
350
Integrated sequence
GACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAGCACCCACGTGTCCTGGCCAAAATTTGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTC| |CTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGA
Host Sequence
Chromosome
chr1
Cytoband
p34.1
Reference genome
GRCh37/hg19
Start
45139401/44673729 (Hg38)
End
45139401/44673729 (Hg38)
Location type
Intronic
Target gene
TMEM53
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-12136/Upstream/128177; hsa-mir-101-1/Downstream/6386108;
Nearest TSS
ENST00000473358/Upstream/25421; ENST00000453711/Downstream/673;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18678, chr1-CpG: 58/Downstream/369
Upstream sequence
AAATCCCCTTGCCTCAGCTCTGGGACAGTAGTTCCTACAGCTGTAGGGAGGTCTGTTAATGCACCTGGCTGAACAGGAGGTACAAGAGTAAGTACCTTCT
Downstream sequence
CTCACTTGGTGGAACAGGCCAAGGAGATCCCCCAAGTACAGCATCAGCTTCACCCTGTGTACCTTCCTCCAGCAAAGGAAGGCCTGGCCACAAGAGGGCT
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.
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