RPS29 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000220
Fusion event
HBV-RPS29 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1794
Integrated sequence
ACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAA| |ATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGC
Host Sequence
Chromosome
chr14
Cytoband
q21.3
Reference genome
GRCh38.p7
Start
49595387 (Hg38)
End
49595387 (Hg38)
Orient
+
Location type
Intronic
Target gene
RPS29
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-96-5p ; hsa-mir-652-3p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-208a/Upstream/1834283; hsa-mir-1185-1/Downstream/371012;
Nearest TSS
ENST00000550708/Upstream/9011; ENST00000557531/Downstream/3296;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/9072, chr14-CpG: 164/Downstream/3079
Downstream sequence
GGTCTTTGTACTAGGAGGCTGTAGGCATAA
Junction sequence
ACCAGACTAGGCAACATAGCAAGAACCCCCGGTCTTTGTACTAGGAGGCTGTAGGCATAA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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