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Fusion gene ID: 20246 |
FusionGeneSummary for LRRC58_LSAMP |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LRRC58_LSAMP | Fusion gene ID: 20246 | Hgene | Tgene | Gene symbol | LRRC58 | LSAMP | Gene ID | 116064 | 4045 |
| Gene name | leucine rich repeat containing 58 | limbic system associated membrane protein | |
| Synonyms | - | IGLON3|LAMP | |
| Cytomap | 3q13.33 | 3q13.31 | |
| Type of gene | protein-coding | protein-coding | |
| Description | leucine-rich repeat-containing protein 58 | limbic system-associated membrane proteinIgLON family member 3 | |
| Modification date | 20180519 | 20180522 | |
| UniProtAcc | Q96CX6 | Q13449 | |
| Ensembl transtripts involved in fusion gene | ENST00000295628, | ENST00000539563, ENST00000490035, ENST00000498645, | |
| Fusion gene scores | * DoF score | 5 X 4 X 3=60 | 14 X 11 X 12=1848 |
| # samples | 6 | 24 | |
| ** MAII score | log2(6/60*10)=0 | log2(24/1848*10)=-2.94485844580754 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: LRRC58 [Title/Abstract] AND LSAMP [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | RV | PRAD | TCGA-EJ-A65D-01A | LRRC58 | chr3 | 120067591 | - | LSAMP | chr3 | 115805403 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000295628 | ENST00000539563 | LRRC58 | chr3 | 120067591 | - | LSAMP | chr3 | 115805403 | - |
| Frame-shift | ENST00000295628 | ENST00000490035 | LRRC58 | chr3 | 120067591 | - | LSAMP | chr3 | 115805403 | - |
| 5CDS-intron | ENST00000295628 | ENST00000498645 | LRRC58 | chr3 | 120067591 | - | LSAMP | chr3 | 115805403 | - |
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FusionProtFeatures for LRRC58_LSAMP |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LRRC58 | LSAMP |