VTN _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005790
Fusion event
HBV-VTN 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
1005
Orient
+
Integrated sequence
TTTACCACAGGAACATATTGTACGGAAACTCAAGCAATGTTTTCGAAAACTGCCTGTAAATAGACCTATTGATTGGAAAGTATGTCAAAGAATTGTGGGT| |CTTTTGGGCTTTGCTGCCCCTTTTACACAATGTGGCTATCCTGCCTTGATGCCTTTATATGCATGTATACAATCTAAGCAGGCTTTCACTTTCTCGCCAA
Host Sequence
Chromosome
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
26696985/28369964 (Hg38)
End
26696985/28369964 (Hg38)
Orient
+
Location type
Exon SARM1,promoter SEBOX,promoter
Target gene
VTN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p
Nearest miRNA
hsa-mir-1180/Upstream/9230; hsa-mir-10226/Downstream/491405;
Nearest TSS
ENST00000595228/Upstream/1027; ENST00000582323/Downstream/858;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/12112, chr17-CpG: 116/Downstream/1374
Upstream sequence
ATGGTAGTGAGTCTCCAGCAGCAGGGGGCACCCCAGCCCACCCACCTGGGCTCTGAACACACCTTGGGGCTTGCACTCAGCCGTATAGTCTGTGCAGCAG
Downstream sequence
CTCTGGTAGTAAGAGCAGAGCTCGTCACACTGGCACTTCTTGTCCACGTTGAAGCCCTCAGTGCAGCGGCCCTTGCATGACTCTATGAGGAAGGAGTGTC
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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