CCDC57 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004686
Fusion event
HBV-CCDC57 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1807
Orient
+
Integrated sequence
TCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACC| |AGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACA
Host Sequence
Chromosome
chr17
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
80062089/82104213 (Hg38)
End
80062089/82104213 (Hg38)
Orient
+
Location type
Intron
Target gene
CCDC57
miRNAs that regulate target gene
hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10226/Upstream/410344; hsa-mir-4525/Downstream/132455;
Nearest TSS
ENST00000595228/Upstream/2363; ENST00000579979/Downstream/2162;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/3205, chr17-CpG: 22/Downstream/22951
Upstream sequence
TAATCTGAGGTCAACCCAGTAACTGGTGTGTAAAAACGCTCTTGGCCTCCACCACTCTCTGCCCCGCCTTCTCGCCTGACCTGTTTTGCCGAGCCTGGCC
Downstream sequence
GGGATTTCTCTTTCTGCGTTGGGCTGACTGGGCCGCAGGGAAACCATGTGGACACACAGTTTGCCGGGCACAGCGTGAGGAACGCGCCTCTTGGGTCCTG
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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