FBXO4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014612
Fusion event
HBV-FBXO4 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|Polymerase|
Start
1514
Orient
-
Integrated sequence
GACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGA| |CCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGA
Host Sequence
Chromosome
chr5
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
42009761/42009659 (Hg38)
End
42009761/42009659 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
FBXO4
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-10397/Upstream/3452098; hsa-mir-103a-1/Downstream/11941845;
Nearest TSS
ENST00000502646/Upstream/70361; ENST00000564402/Downstream/178607;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/84045, chr5-CpG: 21/Downstream/413769
Nearby gene
FBXO4(-68089) ; GHR(+414116) ;
Upstream sequence
CCAGGGCTTCCCACGTGCGCAGCAGGACGCAGCGCTGCCTGAAACTCGCGCCGCGAGGAGAgggcggggccgcggaaaggaaggggaggggctgggaggg
Downstream sequence
ATGCTGCACATCTCTGTCTCATCAGTCACTGGACTGTTACATAATTGCTTGTTCATAAGTCTTTCTCCCATAGAAGACTAAGTGTTCCTTTTAGTTTAAA
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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