Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005980
Fusion event
HBV-CPS1 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
2612
Orient
-
Integrated sequence
CTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAAT| |GAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAAC
Host Sequence
Chromosome
chr2
Cytoband
q34
Reference genome
End
211426536/210561812 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-17-5p ; hsa-mir-3121-3p ; hsa-mir-4255 ; hsa-mir-4709-3p ; hsa-mir-7154-5p ; hsa-mir-101-3p ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-6744-5p ; hsa-mir-8060 ; hsa-mir-16-1-3p ; hsa-mir-144-3p ; hsa-mir-216a-5p ; hsa-mir-522-3p ; hsa-mir-224-3p ; hsa-mir-4694-3p ; hsa-mir-6516-5p ; hsa-mir-6738-3p ; hsa-mir-1303 ; hsa-mir-3678-3p ; hsa-mir-1273h-3p ; hsa-mir-5001-3p ; hsa-mir-4727-5p ; hsa-mir-1200 ; hsa-mir-142-3p ; hsa-mir-630 ; hsa-mir-146b-3p ; hsa-mir-6799-3p ; hsa-mir-3173-5p ; hsa-mir-7976 ; hsa-mir-496 ; hsa-mir-302a-5p ; hsa-mir-18a-3p ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-4682 ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-4778-5p ; hsa-mir-200b-5p ; hsa-mir-200a-5p ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-548l ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10b/Upstream/2806931; hsa-mir-1244-1/Downstream/1864451;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/85000, chr2-CpG: 86/Downstream/1975644
Upstream sequence
TCAAAGTTTGTGTTAGGCTCCTTAGCCCTAGGGATCTTTAGCTTCCATTTGATTTTCTTCATGTGATCTAAATGAGTTGAACTTATAAAAATATTTTCAA
Downstream sequence
GGCTACTCTGTTTGCTTTTTATTTTTTTCAACTTGTTAAATGCTATACATTGATCTTTTAAATTTCATAGGGAGGTAACTGACTAATTTGAAGTTCTCAT
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).