EBF3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015043
Fusion event
HBV-EBF3 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp3 X protein
Start
1566
Orient
-
Integrated sequence
CGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTC| |ATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACT
Host Sequence
Chromosome
chr10
Cytoband
q26.3
Reference genome
GRCh37/hg19
Start
131711537/129913273 (Hg38)
End
131711537/129913273 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
EBF3
Nearest miRNA
hsa-mir-107/Upstream/69899; hsa-mir-202/Downstream/1049315;
Nearest TSS
ENST00000439456/Upstream/67945; ENST00000486974/Downstream/50568;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/14125, chr10-CpG: 179/Downstream/45153
Nearest cancer related gene
EBF3(TSG, No orient, 0)
Upstream sequence
TAGGGTCCGTCTCAGACACTCTGACTCCACGTTTTAACAAGCATGCAAAGAAAACAGCATAAAGATAACAAAACATTGTCATTACCATCTCCGGTGACTC
Downstream sequence
TGTGTGCCTTTAACACTTGCACACATTTTCTCCTGGTGGCCCCCACACAGTTGCATGCACTGGGCAGGGCCCAAGGCTTGCTCCAGAGGTCCCTAAATGA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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