ECM1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017603
Fusion event
HBV-ECM1 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
core protein;
Start
2282
Integrated sequence
CTAAAAATCAGACAACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGAGAAACTGTTCTTGAGTATTTGGTGTCTTTTGGAGTGTGGATTCGCA| |CTCCTCCCGCTTACAGACCACCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCC
Host Sequence
Chromosome
chr1
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
150485286/150512810 (Hg38)
End
150485286/150512810 (Hg38)
Location type
Exonic
Fragile sites / regions
FRA1F
Target gene
ECM1
miRNAs that regulate target gene
hsa-mir-486-3p
Nearest miRNA
hsa-mir-101-1/Upstream/20400; hsa-mir-1182/Downstream/39119;
Nearest TSS
ENST00000473358/Upstream/3508; ENST00000416894/Downstream/2947;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/148230, chr1-CpG: 38/Downstream/2750
Upstream sequence
tttacacagagcagacttgaaacactctttttgtggaatttgcaagtggagatttcagccgctttgaggtcaatggtagaaaaggaaatatcttcgtata
Downstream sequence
TTGTCATCTTTCCAAGGAGACTACCCCAAAGAGAAAGTATTTCCAATTATTTTTCTTTATATTGGAATTCACTTTTTTTTAAAGTAGAAAAGTAAGACAC
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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