Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000083
Fusion event
HBV-GREB1 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
End
1828
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr2
Cytoband
p25.1
Reference genome
Start
End
11525752 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-340-5p ; hsa-mir-520f-3p ; hsa-mir-5004-3p ; hsa-mir-8078 ; hsa-mir-4445-5p ; hsa-mir-885-5p ; hsa-mir-7151-5p ; hsa-mir-5586-3p ; hsa-mir-302c-3p ; hsa-mir-548s ; hsa-mir-513b-5p ; hsa-mir-3926 ; hsa-mir-5189-3p ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-490-3p ; hsa-mir-6514-3p ; hsa-mir-4303 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-4755-3p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-5693
Nearest miRNA
hsa-mir-4261/Upstream/1333081; hsa-mir-10b/Downstream/14853;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/42613, chr2-CpG: 50/Downstream/66963
Downstream sequence
GTCTGCGCACCAGCACCATGCAACTTTTTC
Junction sequence
GCCCCGACCTCATGCTCCATCCTGCCAGGCGTCTGCGCACCAGCACCATGCAACTTTTTC
* 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).