Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006087
Fusion event
HBV-RPL34 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
2751
Orient
-
Integrated sequence
TATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTAC| |ATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTTCATTTTGTGGGTCACCATATTCTTGGGAACAAGAGCTACAGCATGG
Host Sequence
Chromosome
chr4
Cytoband
q25
Reference genome
End
109550835/108629679 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-331-3p ; hsa-mir-4284 ; hsa-mir-6722-5p ; hsa-mir-2276-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-122-3p ; hsa-mir-8057 ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-760 ; hsa-mir-6822-3p ; hsa-mir-8064 ; hsa-mir-149-5p ; hsa-mir-7110-3p ; hsa-mir-892b
Nearest miRNA
hsa-mir-12113/Upstream/7299265; hsa-mir-1243/Downstream/859019;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/456289, chr4-CpG: 30/Downstream/20858
Upstream sequence
agtgacagtttctcaccaggctaggatttgaacccaagtagtctggatccagagcccAATACTGTGCTTTTCTGCCTTTCAACTATAATGCTCTGATCAC
Downstream sequence
CTCCTTCCGTTGAATTGCTTATAAATTCTGTTAGAAGGTTGAAAGGGTTCTTTTACCCTTAAAAATATAAAATCTCCAAATGTTTAAGTAAGCAAATCAA
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).