RP1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000275
Fusion event
HBV-RP1 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
1956
Integrated sequence
TCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTT| |TTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACC
Host Sequence
Chromosome
chrX
Cytoband
q25
Reference genome
GRCh38.p7
Start
128327086 (Hg38)
End
128327086 (Hg38)
Orient
+
Location type
Intronic
Target gene
RP1
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-let-7f-2/Upstream/6956033; hsa-mir-105-1/Downstream/5842292;
Nearest TSS
ENST00000429181/Upstream/274688; ENST00000486673/Downstream/273382;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/1745748, chrX-CpG: 50/Downstream/1195788
Downstream sequence
TTTGGAGCTACTGTGGAGTTACTCTCGTTT
Junction sequence
TACACTTTGTCTTCAATGATCTAATCACACTTTGGAGCTACTGTGGAGTTACTCTCGTTT
* 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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