TRA2A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004808
Fusion event
HBV-TRA2A integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1
Orient
-
Integrated sequence
C| |TCCACAACATTCCACCAAGCTCTGCTAGATCCCAGAGTGAGGGGCCTATATTTTCCTGCTGGTGGCTCCAGTTCCGGAACAGTAAACCCTGTTCCGACTA
Host Sequence
Chromosome
chr7
Cytoband
p15.3
Reference genome
GRCh37/hg19
Start
23553423/23513804 (Hg38)
End
23553423/23513804 (Hg38)
Orient
+
Location type
Intron
Target gene
TRA2A
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-196b-5p ; hsa-mir-30c-5p
Nearest miRNA
hsa-mir-1183/Upstream/2042658; hsa-mir-10399/Downstream/2436115;
Nearest TSS
ENST00000635602/Upstream/7324; ENST00000484553/Downstream/17876;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/22733, chr7-CpG: 89/Downstream/17334
Junction sequence
GTCATCCTCAGGCCATACAGTGGAA
* 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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