PHRF1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006272
Fusion event
HBV-PHRF1 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
1800
Orient
+
Integrated sequence
GCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCT| |GTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGC
Host Sequence
Chromosome
chr11
Cytoband
p15.5
Reference genome
GRCh37/hg19
Start
591162/591162 (Hg38)
End
591162/591162 (Hg38)
Orient
+
Location type
Intron
Target gene
PHRF1
miRNAs that regulate target gene
hsa-mir-1229-3p ; hsa-mir-92b-3p ; hsa-mir-193b-3p ; hsa-mir-222-3p
Nearest miRNA
hsa-mir-210/Upstream/22964; hsa-let-7a-2/Downstream/665443;
Nearest TSS
ENST00000527297/Upstream/14641; ENST00000532550/Downstream/10495;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/1041, chr11-CpG: 19/Downstream/6303
Upstream sequence
cagaagacttgaacaggctcgccgcagaggggCCTGTgcacaatgccgcccccacgcctgtccttcctccctttattgttcttacttgtcactgagatgc
Downstream sequence
tacgcgttcatggagctgctctttcctccccgctagggctggcagctctgcagggaggcaaggctcgctgtgctccctccactgccgtgttgccagcagc
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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