CHSY3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005036
Fusion event
HBV-CHSY3 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
1806
Orient
+
Integrated sequence
TTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCAC| |CAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGAC
Host Sequence
Chromosome
chr5
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
129449049/130113356 (Hg38)
End
129449049/130113356 (Hg38)
Orient
-
Location type
Intron
Target gene
CHSY3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-484
Nearest miRNA
hsa-mir-10397/Upstream/716209; hsa-mir-103a-1/Downstream/2104493;
Nearest TSS
ENST00000502646/Upstream/205269; ENST00000507584/Downstream/1049271;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/207437, chr5-CpG: 27/Downstream/881722
Upstream sequence
ACCACATGGAGTCCATCATCATTAAAAATTTGTTGATTTCAAATGAAACAAATAAAATTTGTTATTACTATGttctctgtatctatgtcctcttgtcttc
Downstream sequence
TCTCAATCTCTGTAGGAATGTATTTTAAGTACAGTTCTATGTACTTTGTAATCTCTCCATTTATAAATGTCACAATATGTATTTAAACTCAGAAACAAAG
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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