SLC29A3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005882
Fusion event
HBV-SLC29A3 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
462
Orient
-
Integrated sequence
CTGGCTATCGCTGGATGTGTCTGCGGCGTTTTATCATATTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTACCAAGGTAT| |GTTGCCCGTTTGTCCTCTACTTCCAGGAACATCAACTACCAGCACGGGACCATGCAAGACCTGCACGATTCCTGCTCAAGGAACCTCTATGTTTCCCTCT
Host Sequence
Chromosome
chr10
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
73080892/71321135 (Hg38)
End
73080892/71321135 (Hg38)
Orient
-
Location type
Intron
Target gene
SLC29A3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1265/Upstream/3917725; hsa-mir-107/Downstream/469612;
Nearest TSS
ENST00000439456/Upstream/1469; ENST00000469204/Downstream/1689;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/103118, chr10-CpG: 37/Downstream/56079
Upstream sequence
gaaatgggtcttagagtagtacctaatatattaggctgttgtcagcctcaagtgTGACCTCTGTTAGGCACAGACCTTGGCATTTGTGATCACTGGACTT
Downstream sequence
AAGTTTAGCTATTGGGAGTTctttctatttgtgggacatagcaagtgccttccagacctcagtttttccatctgaaaaaagggggcaatgttttctgccc
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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