SORCS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006579
Fusion event
HBV-SORCS3 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1799
Integrated sequence
AGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAG| |CCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGG
Host Sequence
Chromosome
chr10
Cytoband
q25.1
Reference genome
GRCh38
Start
105121512 (Hg38)
End
105121512 (Hg38)
Location type
Intron
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
SORCS3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p
Nearest miRNA
hsa-mir-107/Upstream/853107; hsa-mir-202/Downstream/5776578;
Nearest TSS
ENST00000439456/Upstream/455312; ENST00000393176/Downstream/37416;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/478458, chr10-CpG: 100/Downstream/2042510
Upstream sequence
ATTGATTTCTCATTTCGTTTTT
Junction sequence
ATTGATTTCTCATTTCGTTTTTCCAATTTATGCCTNCAGCC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
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