|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 15488 |
FusionGeneSummary for GRN_TMEM54 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: GRN_TMEM54 | Fusion gene ID: 15488 | Hgene | Tgene | Gene symbol | GRN | TMEM54 | Gene ID | 2896 | 113452 |
| Gene name | granulin precursor | transmembrane protein 54 | |
| Synonyms | CLN11|GEP|GP88|PCDGF|PEPI|PGRN | BCLP|CAC-1|CAC1 | |
| Cytomap | 17q21.31 | 1p35.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | granulinsPC cell-derived growth factoracrograningranulin-epithelinproepithelinprogranulin | transmembrane protein 54beta-casein-like proteinprotein CAC-1 | |
| Modification date | 20180522 | 20180519 | |
| UniProtAcc | P28799 | Q969K7 | |
| Ensembl transtripts involved in fusion gene | ENST00000053867, ENST00000589265, ENST00000589923, | ENST00000373463, ENST00000329151, ENST00000475208, | |
| Fusion gene scores | * DoF score | 13 X 10 X 6=780 | 1 X 1 X 1=1 |
| # samples | 19 | 2 | |
| ** MAII score | log2(19/780*10)=-2.03747470541866 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(2/1*10)=4.32192809488736 | |
| Context | PubMed: GRN [Title/Abstract] AND TMEM54 [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 |
| ChiTaRS3.1 | AW062631 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + | ||
| ChiTaRS3.1 | AW062637 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| * 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 | ENST00000053867 | ENST00000373463 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| 5CDS-intron | ENST00000053867 | ENST00000329151 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| 5CDS-5UTR | ENST00000053867 | ENST00000475208 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| intron-3CDS | ENST00000589265 | ENST00000373463 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| intron-intron | ENST00000589265 | ENST00000329151 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| intron-5UTR | ENST00000589265 | ENST00000475208 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| 3UTR-3CDS | ENST00000589923 | ENST00000373463 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| 3UTR-intron | ENST00000589923 | ENST00000329151 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
| 3UTR-5UTR | ENST00000589923 | ENST00000475208 | GRN | chr17 | 42428455 | - | TMEM54 | chr1 | 33361292 | + |
Top |
FusionProtFeatures for GRN_TMEM54 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| GRN | TMEM54 |