TRABD _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006299
Fusion event
HBV-TRABD 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
1625
Orient
-
Integrated sequence
GCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAAC| |GCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTA
Host Sequence
Chromosome
chr22
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
50625797/50187368 (Hg38)
End
50625797/50187368 (Hg38)
Orient
+
Location type
Intron
Target gene
TRABD
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-17-3p
Nearest miRNA
hsa-let-7a-3/Upstream/224429; hsa-mir-12114/Downstream/220074;
Nearest TSS
ENST00000624155/Upstream/1450; ENST00000472677/Downstream/3230;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/571, chr22-CpG: 25/Downstream/3152
Upstream sequence
AGGAGGCCTCGGGCTCTGGCTCAGGTGTGTTTCCCGTCTCCCAGCTCTGCCACACCTGCGTGAAGCGGTCCCGCCAAAGCCGGGAGGGGTTTCCTGTGGC
Downstream sequence
CAAAGGTGCCAGGCATCAGAAACAGGAAGCAGGGGAGGTCAAAGCTCTGGGCCACACCCTGGTCCCTCCAAGTTTGTCATTTCTGCAACCCCCAGGTCTG
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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