Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005996
Fusion event
HBV-ACAP2 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
2606
Orient
-
Integrated sequence
ACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACA| |GTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATC
Host Sequence
Chromosome
chr3
Cytoband
q29
Reference genome
End
195132384/195411655 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-106b-5p ; hsa-mir-20a-5p ; hsa-mir-1273e ; hsa-mir-4722-5p ; hsa-mir-1827 ; hsa-mir-219b-3p ; hsa-mir-4768-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-302f ; hsa-mir-4762-3p ; hsa-mir-505-3p ; hsa-mir-138-2-3p ; hsa-mir-1228-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-409-5p ; hsa-mir-4539 ; hsa-mir-154-5p ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-7703 ; hsa-mir-661 ; hsa-mir-4696 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-3120-3p ; hsa-mir-129-5p ; hsa-mir-6885-3p ; hsa-mir-4668-5p ; hsa-mir-103a-2-5p ; hsa-mir-1276 ; hsa-mir-6776-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-4314 ; hsa-mir-7977 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-3975 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-383-3p ; hsa-mir-514a-5p ; hsa-mir-4422 ; hsa-mir-6835-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-let-7g/Upstream/277075; hsa-mir-4797/Downstream/287746;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/139906, chr3-CpG: 142/Downstream/30507
Upstream sequence
ATGTAAGATCAAAAAATAATGTTTTAGTCCCAAGTTAGATTTTTAAAGTACTGCATTCATCCTGATGACTAACTAATAGAAACTAGTGGAATGTTAGCAA
Downstream sequence
AGTACAGGCCAATTCCAAATGAATAAATTTCTAGATCAAACCACGGAGAGACTTACAGATAATTAACAAAATAAAATAAATATGCAGCATTAAAACTCAC
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).