RGS12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019919
Fusion event
HBV-RGS12 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27064257
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
423
Integrated sequence
AACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTA| |TGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGA
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
3421279/3419552 (Hg38)
End
3421279/3419552 (Hg38)
Location type
Intron9
Target gene
RGS12
miRNAs that regulate target gene
hsa-mir-149-5p ; hsa-mir-138-5p ; hsa-mir-7704 ; hsa-mir-4532 ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-665 ; hsa-mir-4459
Nearest miRNA
hsa-mir-4800/Upstream/1169396; hsa-mir-12113/Downstream/2503723;
Nearest TSS
ENST00000502981/Upstream/2039; ENST00000510803/Downstream/836;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/5926, chr4-CpG: 24/Downstream/28371
Upstream sequence
tgctcagcacagacgcgggggacatcgcgaaggtggagcagcgcatgcctctccacagacgttgggggcactgcttcattttgggacaactgggggccac
Downstream sequence
ctttaaatcccagcgctttggcggtggggcgaggtgtgaggatcgtttgagtctaggagttcaataccagcctgggcaacacagcaagacactcatctct
Reference
Fujimoto, A., et al. Whole-genome mutational landscape and characterization of noncoding and structural mutations in liver cancer. Nat Genet ,2016,48(5): 500-509.
Curate