TMCO4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005202
Fusion event
HBV-TMCO4 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1847
Orient
-
Integrated sequence
GGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCAT| |GTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACT
Host Sequence
Chromosome
chr1
Cytoband
p36.13
Reference genome
GRCh37/hg19
Start
20047369/19720876 (Hg38)
End
20047369/19720876 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
FRA1A
Target gene
TMCO4
miRNAs that regulate target gene
hsa-mir-615-3p
Nearest miRNA
hsa-mir-12136/Upstream/823728; hsa-mir-101-1/Downstream/912803;
Nearest TSS
ENST00000473358/Upstream/19666; ENST00000454736/Downstream/17543;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/41504, chr1-CpG: 26/Downstream/79153
Junction sequence
TCT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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