Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004924
Fusion event
HBV-ASXL3 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
2446
Orient
-
Integrated sequence
TAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAA| |TGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCT
Host Sequence
Chromosome
chr18
Cytoband
q12.1
Reference genome
Start
End
31215627/33635663 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-221-3p ; hsa-mir-26b-5p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6783-5p ; hsa-mir-4779 ; hsa-mir-6510-5p ; hsa-mir-3120-3p ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-1305 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-498 ; hsa-mir-4465 ; hsa-mir-26a-5p ; hsa-mir-6715b-3p ; hsa-mir-1297 ; hsa-mir-676-5p ; hsa-mir-7844-5p ; hsa-mir-708-3p
Nearest miRNA
hsa-mir-1-2/Upstream/3336703; hsa-mir-122/Downstream/1956074;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/56640, chr18-CpG: 45/Downstream/523420
Junction sequence
AAATAATTAATTC
* 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).