B4GALT3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005210
Fusion event
HBV-B4GALT3 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1826
Orient
+
Integrated sequence
GGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATT
Host Sequence
Chromosome
chr1
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
161151554/161181764 (Hg38)
End
161151554/161181764 (Hg38)
Orient
+
Location type
Promoter
Target gene
B4GALT3
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-98-5p ; hsa-mir-96-5p ; hsa-mir-125b-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1281685; hsa-mir-1182/Downstream/45422;
Nearest TSS
ENST00000473358/Upstream/3796; ENST00000475570/Downstream/13987;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/4103, chr1-CpG: 41/Downstream/20255
Upstream sequence
aaagaaagagagaaagagagaaaATGTGGTTCTCCCAGAGGACCCTTCCTTTGAGCCTCTGTTCCTCCATCGCGTTCTGTCTTACAGGACTGACCCTCAC
Downstream sequence
tttcttttttttttttgggatggagtttctctcttgttgcccaggctggagtgcaacagcatgatctgcagctcaccgcaacctccgcctcctgggttca
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).
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