SYNPR _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017387
Fusion event
HBV-SYNPR integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
30070724
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
NC_003977
Start
1403
End
1493
Integrated sequence
ATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCC
Host Sequence
Chromosome
chr3
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
63414906/63429230 (Hg38)
End
63415005/63429329 (Hg38)
Location type
Intron
Fragile sites / regions
FRA3B
Target gene
SYNPR
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-let-7a-5p
Nearest miRNA
hsa-let-7g/Upstream/2811360; hsa-mir-12124/Downstream/3796135;
Nearest TSS
ENST00000440867/Upstream/77801; ENST00000467934/Downstream/13748;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/150701, chr3-CpG: 152/Downstream/434041
Upstream sequence
GTTCCGCCATGCCCGGACCTTGTCTTTTCCGTCCGACTTCCCTATGGAACTCTGTGCAGGCATCCAGTCAACATTTTTTGAAACATTTTGTTAAAGTCAT
Downstream sequence
ACTAAAGTTAAATAGGTCTCCAAAATATATCCAATGGCTGTGGATCTGAAGTGGAATTTAGTCATGAGATACCCAATTATTCTTAGCACTTCTGCTCACT
Target sequence
GCTGAAAGGATTGTATCAATAATTTGCATATCATAAACCAATGTAGCCTTCTTCTCTGTAGAGCATGTAGGTGGGTAACAATGGAAAGAGCCTCAAACT
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.
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