GRIA1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005041
Fusion event
HBV-GRIA1 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
1827
Orient
+
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr5
Cytoband
q33.2
Reference genome
GRCh37/hg19
Start
153033754/153654194 (Hg38)
End
153033754/153654194 (Hg38)
Orient
-
Location type
Intron
Target gene
GRIA1
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-335-5p ; hsa-mir-124-3p
Nearest miRNA
hsa-mir-10397/Upstream/2132046; hsa-mir-103a-1/Downstream/692912;
Nearest TSS
ENST00000502646/Upstream/80966; ENST00000561496/Downstream/244793;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1728931, chr5-CpG: 50/Downstream/384429
Junction sequence
ACT
* 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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