Proximate region of VIS (GRCh38)VISEnhancerEnhancer/PromoterPromoterGene94544416923036229381015793424019
GRID2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006002
Fusion event
HBV-GRID2 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
2414
Orient
-
Integrated sequence
ATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGC| |GTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCT
Host Sequence
Chromosome
chr4
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
94345170/93424019 (Hg38)
End
94345170/93424019 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA4E
Target gene
GRID2
miRNAs that regulate target gene
hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-448
Nearest miRNA
hsa-mir-12113/Upstream/6123436; hsa-mir-1243/Downstream/5573368;
Nearest TSS
ENST00000502981/Upstream/104233; ENST00000637838/Downstream/345211;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1118163, chr4-CpG: 112/Downstream/404325
Upstream sequence
ttcctaaaacaagactgtttgaatttttgaaattaactaattggattctccctaaaataactaaatgtaaaccaatttgaaagtgctgaaaatgttttta
Downstream sequence
gccttcttaacttactacattctatcttaagttaatattgtactacttcacataaaaagtaataaattttcagcaatataattttatttgtactcactcc
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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