hsa-mir-550a-3-5p _LIHC.png
FRRS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000550
Fusion event
HBV-FRRS1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr1
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
100188402/99722846 (Hg38)
End
100188402/99722846 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1E
Target gene
FRRS1
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-487b-3p ; hsa-mir-5011-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-1271-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-665 ; hsa-mir-383-3p ; hsa-mir-6818-3p ; hsa-mir-4684-5p ; hsa-mir-1257 ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-4790-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1676675; hsa-mir-11399/Downstream/558395;
Nearest TSS
ENST00000473358/Upstream/7187; ENST00000477753/Downstream/42947;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/458067, chr1-CpG: 63/Downstream/127018
Upstream sequence
GATAAATGTCATATCCTGTGCAAATAATGGCAGGTTAATAGCCCTCATTTTCTTTCTTGTCTCATTGCAT
Junction sequence
GATAAATGTCATATCCTGTGCAAATAATGGCAGGTTAATAGCCCTCATTTTCTTTCTTGTCTCATTGCATTTAACCTAATCTCCTCCCCCAACTCCTCCCAGTCCTTAAACAAACAGTCTTTGAAGTATGCCTCAAGGTCGGTCGTTGACATTGCTGCGAGTCCAAGAGTC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate