PPP1R12C _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005595
Fusion event
HBV-PPP1R12C 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
1794
Orient
+
Integrated sequence
CTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAAT| |TGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTT
Host Sequence
Chromosome
chr19
Cytoband
q13.42
Reference genome
GRCh37/hg19
Start
55621497/55110129 (Hg38)
End
55621497/55110129 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA19A
Target gene
PPP1R12C
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-32-5p ; hsa-mir-130b-5p ; hsa-mir-125b-2-3p ; hsa-let-7b-5p ; hsa-mir-8057 ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-6778-3p ; hsa-mir-532-3p ; hsa-mir-7107-5p ; hsa-mir-1234-3p ; hsa-mir-1224-3p ; hsa-mir-4793-5p ; hsa-mir-1306-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-let-7e/Upstream/464746; hsa-mir-10394/Downstream/13096;
Nearest TSS
ENST00000633603/Upstream/13065; ENST00000591665/Downstream/3489;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/12449, chr19-CpG: 99/Downstream/6991
Upstream sequence
GAAGAAGCATGGCCCCCTCTGAGAAGCTGATGCAAGTTATGAGCAATTTCTGCAGGAAAATACAACGTCAGAAAGTTCACAGACCCCCTGGAGGCCATTC
Downstream sequence
CCGGCCTCCCTGGGGTCCAAGGGAAAAGGAGGACTGATCCAGACAGAGGGAGCCTAAATCACCCAGATCTGGATCCCTAGCTGGGCCCTGAACCAGAGCG
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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