GDI2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000190
Fusion event
HBV-GDI2 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1807
Integrated sequence
CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA
Host Sequence
Chromosome
chr10
Cytoband
p15.1
Reference genome
GRCh38.p7
Start
5788462 (Hg38)
End
5788462 (Hg38)
Orient
-
Location type
Intronic
Target gene
GDI2
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-193b-3p ; hsa-mir-328-3p ; hsa-mir-222-3p ; hsa-mir-30c-5p ; hsa-mir-20a-5p ; hsa-mir-15a-5p ; hsa-mir-4662b ; hsa-mir-4647 ; hsa-mir-4426
Nearest miRNA
hsa-mir-5699/Upstream/1797203; hsa-mir-107/Downstream/363734;
Nearest TSS
ENST00000439456/Upstream/2540; ENST00000608273/Downstream/24925;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/102728, chr10-CpG: 132/Downstream/24281
Downstream sequence
GGAGGCTGTAGGCATAAATTGGTCTGCGCA
Junction sequence
ATTCAAGGGACAACTGTAAATACAGAAAGGGGAGGCTGTAGGCATAAATTGGTCTGCGCA
* 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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