hsa-mir-541-5p _LIHC.png
SETX _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004187
Fusion event
HBV-SETX integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr9
Cytoband
q34.13
Reference genome
GRCh37/hg19
Start
135199199/132323812 (Hg38)
End
135199199/132323812 (Hg38)
Location type
Intronic
Target gene
SETX
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-18a-3p ; hsa-mir-377-3p ; hsa-mir-539-5p ; hsa-mir-485-3p ; hsa-mir-432-5p ; hsa-mir-4477b ; hsa-mir-4694-5p ; hsa-mir-24-3p ; hsa-mir-3934-3p ; hsa-mir-2467-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-586 ; hsa-mir-541-5p
Nearest miRNA
hsa-let-7a-1/Upstream/1697449; hsa-mir-126/Downstream/621895;
Nearest TSS
ENST00000422679/Upstream/11956; ENST00000393215/Downstream/31173;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/81270, chr9-CpG: 93/Downstream/30735
Upstream sequence
ACCTTACCAAATCATTGGCATTTACTATCTAACATAGTAGTTAATATCGGAATATCTATTAACTGCTAATAAAAATCCTTTAAGTTTATGAATTTTAGCt
Downstream sequence
ggactaccagaggccaagaggttgaggctgcagtgagccataattgtgccactgtactccagcctgggggacaggagtgagaccctgtctccaaaaaaga
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate