DSCAML1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004712
Fusion event
HBV-DSCAML1 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
1819
Orient
-
Integrated sequence
TGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATA
Host Sequence
Chromosome
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
117555328/117684613 (Hg38)
End
117555328/117684613 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA11B
Target gene
DSCAML1
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-10392/Upstream/4234525; hsa-let-7a-2/Downstream/959387;
Nearest TSS
ENST00000527297/Upstream/16130; ENST00000531850/Downstream/112478;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/165857, chr11-CpG: 24/Downstream/95888
Junction sequence
AG
* 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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