RGS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006537
Fusion event
HBV-RGS3 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
1829
Integrated sequence
GTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTG| |CGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTAGGAGTTCCGCAGTATGGATCGGCAGAG
Host Sequence
Chromosome
chr9
Cytoband
q32
Reference genome
GRCh38
Start
113532006 (Hg38)
End
113532006 (Hg38)
Location type
Intron
Fragile sites / regions
FRA9E
Target gene
RGS3
miRNAs that regulate target gene
hsa-mir-126-3p ; hsa-mir-133a-3p ; hsa-mir-26b-5p ; hsa-mir-25-3p
Nearest miRNA
hsa-let-7a-1/Upstream/1599837; hsa-mir-12126/Downstream/677428;
Nearest TSS
ENST00000422679/Upstream/9523; ENST00000492676/Downstream/4498;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/68153, chr9-CpG: 18/Downstream/52114
Upstream sequence
GAGGAGCTGGGTGTC
Junction sequence
GAGGAGCTGGGTGTCTGAAAAAGTTGCATGGTGCT
* 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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