Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005419
Fusion event
HBV-GRIK2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1824
Orient
-
Integrated sequence
AAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTT| |TCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAA
Host Sequence
Chromosome
chr6
Cytoband
q16.3
Reference genome
End
102392742/101944867 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1303 ; hsa-mir-3122 ; hsa-mir-3123 ; hsa-mir-3201 ; hsa-mir-3675-5p ; hsa-mir-3913-5p ; hsa-mir-3925-5p ; hsa-mir-450a-1-3p ; hsa-mir-450b-3p ; hsa-mir-4791 ; hsa-mir-5002-5p ; hsa-mir-5089-5p ; hsa-mir-6513-5p ; hsa-mir-6728-5p ; hsa-mir-6751-5p ; hsa-mir-6752-5p ; hsa-mir-6803-5p ; hsa-mir-6835-5p ; hsa-mir-6842-5p ; hsa-mir-6890-5p ; hsa-mir-7110-5p ; hsa-mir-769-3p ; hsa-mir-887-5p
Nearest miRNA
hsa-mir-10398/Upstream/2820171; hsa-mir-1202/Downstream/4839258;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/541769, chr6-CpG: 79/Downstream/2914377
Upstream sequence
atcttcattttgttatagggcctcagccatgaacctaggataagtagaaggaaagaaatatttttcctcccttccaCCCcctatatttgctggctcattt
Downstream sequence
tttgttttgagattgataaatttagagattttcagtttatacaattttcctttgacttcagtgttaataattcttagttgatgtaagcattagtaaatta
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).