SFXN2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019183
Fusion event
HBV-SFXN2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr10
Cytoband
q24.32
Reference genome
GRCh37/hg19
Start
104498724/102738967 (Hg38)
End
104498798/102739041 (Hg38)
Location type
Exon12
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
SFXN2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-132-3p ; hsa-mir-128-3p ; hsa-mir-1292-3p ; hsa-mir-1827 ; hsa-mir-1910-3p ; hsa-mir-3612 ; hsa-mir-4252 ; hsa-mir-4459 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-4695-5p ; hsa-mir-6499-3p ; hsa-mir-650 ; hsa-mir-6511a-5p ; hsa-mir-6516-5p ; hsa-mir-665
Nearest miRNA
hsa-mir-107/Upstream/302383; hsa-mir-1307/Downstream/655212;
Nearest TSS
ENST00000439456/Upstream/12467; ENST00000448841/Downstream/4929;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/24013, chr10-CpG: 28/Downstream/115202
Upstream sequence
ccctttctaccatacTTTTCCTGGGAGTACGCACTCGTAATTTGAAGAGCGACTTTTGGGAGAGGGTGGAAGGAAGGCCTGGGCCTCAGCCTAAGGGGCC
Downstream sequence
GATTTCTCAAGCTCCTTGGGGGACTGTTGTTTCTCATCTGGAATCAATGTGTGTATGAGTTTTGTCTGGTAGGATTGCTGACTCTGTCCAACAGATATCA
Target sequence
CCAGGACCAAAGAGCCTTAAAGGACACACAGCAATGCACAGCCACTTCCCTTCCCCAGCTTGGCTGCCCTAGGT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate