SYN3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016163
Fusion event
HBV-SYN3 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
AY033073.1
Start
1799
Orient
-
Integrated sequence
CAAAATTCGCAGTCCCAAATCTCCAGTCACTCACCAACTTGTTGTCCTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCC| |TCTGCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCATCAACCACCAG
Host Sequence
Chromosome
chr22
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
33298914/32902928 (Hg38)
End
33298914/32902928 (Hg38)
Orient
+
Location type
Intronic
Target gene
SYN3
miRNAs that regulate target gene
hsa-mir-4792 ; hsa-mir-6807-5p ; hsa-mir-186-3p
Nearest miRNA
hsa-mir-1286/Upstream/1281397; hsa-let-7a-3/Downstream/533654;
Nearest TSS
ENST00000624155/Upstream/33828; ENST00000452505/Downstream/44651;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/100647, chr22-CpG: 75/Downstream/154978
Nearby gene
TIMP3(-39886) ; LARGE1(+370147) ;
Upstream sequence
GTTTGCAAAACAGTATGCTGCATTAAGCATAACCCCTGGAGACAAAAAAAAAAAAAAAAGTTGGTGGTCCTGGATGTattttactgaggaggacactgag
Downstream sequence
gtttagagcagttaataactttcccagtttacatggctaaaatgtgacagtgccagaatttaaactacggtggtttggattcagaatcACAGTCTTAAAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate