CTNNA1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005617
Fusion event
HBV-CTNNA1 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
1456
Orient
+
Integrated sequence
AAATACACCTCCTTCCCATGGCTGCTCGGGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACG| |ACCCGTCTCGGGGCCGTTTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGT
Host Sequence
Chromosome
chr5
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
138256927/138921238 (Hg38)
End
138256927/138921238 (Hg38)
Orient
+
Location type
Intron
Target gene
CTNNA1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-744-5p ; hsa-mir-296-3p ; hsa-mir-769-3p ; hsa-mir-615-3p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-10397/Upstream/1273589; hsa-mir-103a-1/Downstream/1642433;
Nearest TSS
ENST00000502646/Upstream/16839; ENST00000519489/Downstream/3292;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/167091, chr5-CpG: 43/Downstream/276943
Upstream sequence
CATTATTCCAGTTCTATTTCCTGCTGAGTCTAATAGATGATTTGTTTCTAATCATACAGTCGGTCACATTATGCCTATTCTTTTGGTTCTGTAAAGGCAT
Downstream sequence
TCCACGGAAATGTTATTGATTTCCATTCTCTGTGCTTACATGTTGCAGTTTTGGCTCCCTTTTTTTTGAAGATGCAAGTGGTTGCTTAGAGAAGCTCTAA
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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