Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005149
Fusion event
HBV-CRPPA 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
2621
Orient
-
Integrated sequence
TGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGG| |AGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACATGCAGTTA
Host Sequence
Chromosome
chr7
Cytoband
p21.2
Reference genome
Start
End
16457435/16417810 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-5093 ; hsa-mir-570-3p ; hsa-mir-4511 ; hsa-mir-875-3p ; hsa-mir-548b-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-4666a-5p ; hsa-mir-5689 ; hsa-mir-4536-3p ; hsa-mir-1273h-5p ; hsa-mir-1288-5p ; hsa-mir-149-3p ; hsa-mir-1827 ; hsa-mir-1910-3p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-338-3p ; hsa-mir-3614-5p ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-3913-5p ; hsa-mir-4310 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-450a-1-3p ; hsa-mir-4514 ; hsa-mir-4692 ; hsa-mir-4728-5p ; hsa-mir-4768-3p ; hsa-mir-6089 ; hsa-mir-6500-3p ; hsa-mir-6511a-5p ; hsa-mir-6513-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6785-5p ; hsa-mir-6788-5p ; hsa-mir-6799-5p ; hsa-mir-6808-5p ; hsa-mir-6849-3p ; hsa-mir-6883-5p ; hsa-mir-6893-5p ; hsa-mir-7106-5p ; hsa-mir-7157-5p ; hsa-mir-7977 ; hsa-mir-887-5p ; hsa-mir-940 ; hsa-mir-122-5p ; hsa-mir-1267 ; hsa-mir-129-5p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-3652 ; hsa-mir-3672 ; hsa-mir-367-5p ; hsa-mir-4294 ; hsa-mir-431-5p ; hsa-mir-4423-5p ; hsa-mir-4430 ; hsa-mir-504-3p ; hsa-mir-5691 ; hsa-mir-5698 ; hsa-mir-6501-5p ; hsa-mir-6805-3p ; hsa-mir-6864-3p ; hsa-mir-744-3p ; hsa-mir-8055 ; hsa-mir-924
Nearest miRNA
hsa-mir-339/Upstream/9350765; hsa-mir-10399/Downstream/1709410;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/18110, chr7-CpG: 73/Downstream/3145
Upstream sequence
ctcttttataaccacccccacttctacctgcccccactccctcctttccttcgacaaccactaatctgttctctagttctataattttgttatttcaaga
Downstream sequence
AAATTTGGGGTATCACATACAGCCCTTGAAAAACAAGAAATGACATTCTCTTAGAataacctaaatgattgacagtggtgacacccattatttttcttat
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).