Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000078
Fusion event
HBV-SLC30A10 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
End
1730
Integrated sequence
CACCGAATGTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCTGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAG| |ACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCAC
Host Sequence
Chromosome
chr1
Cytoband
q41
Reference genome
Start
End
219919066 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1303 ; hsa-mir-526b-5p ; hsa-mir-4539 ; hsa-mir-4724-5p ; hsa-mir-5584-3p ; hsa-mir-129-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-335-3p ; hsa-mir-6862-5p ; hsa-mir-4253 ; hsa-mir-3945 ; hsa-mir-4424 ; hsa-mir-6774-5p ; hsa-mir-635 ; hsa-mir-3189-3p ; hsa-mir-1827 ; hsa-mir-1910-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3612 ; hsa-mir-4327 ; hsa-mir-4459 ; hsa-mir-4537 ; hsa-mir-4695-5p ; hsa-mir-5682 ; hsa-mir-6499-3p ; hsa-mir-650 ; hsa-mir-6511a-5p ; hsa-mir-665 ; hsa-mir-6840-3p ; hsa-mir-6871-3p
Nearest miRNA
hsa-mir-101-1/Upstream/7841381; hsa-mir-1182/Downstream/198787;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/305846, chr1-CpG: 116/Downstream/8724
Downstream sequence
AGGCATAATTCAAAAACTGTTTGTTTAAAG
Junction sequence
AATGGAAATGTTGCACACTCCCTGTTCTTAGGCATAATTCAAAAACTGTTTGTTTAAAG
* 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).