TRHDE _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006281
Fusion event
HBV-TRHDE 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
1821
Orient
+
Integrated sequence
TTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACT| |TTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAA
Host Sequence
Chromosome
chr12
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
73048840/72655060 (Hg38)
End
73048840/72655060 (Hg38)
Orient
-
Location type
Intron
Target gene
TRHDE
Nearest miRNA
hsa-let-7i/Upstream/3070237; hsa-mir-1178/Downstream/6764197;
Nearest TSS
ENST00000382841/Upstream/86430; ENST00000550723/Downstream/73784;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/381289, chr12-CpG: 38/Downstream/1882652
Upstream sequence
gAGATTTATAATTTAAGCCCCTTAATATGTCCTCTGCATATTTTGTCAGCGTCTTGTTCTTCAATCTTCAGGCTCACAATGTATCAGTGTATGGACTAAT
Downstream sequence
TTttgttgttgttgttgttgttTGttttttgagacaaggtctcactctgtcacccaggctggagcgcagtggcacaatcacagctctttgcagccttgac
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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