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Fusion gene ID: 2210 |
FusionGeneSummary for APOC1_SLC38A4 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: APOC1_SLC38A4 | Fusion gene ID: 2210 | Hgene | Tgene | Gene symbol | APOC1 | SLC38A4 | Gene ID | 341 | 55089 |
| Gene name | apolipoprotein C1 | solute carrier family 38 member 4 | |
| Synonyms | Apo-CI|ApoC-I|apo-CIB|apoC-IB | ATA3|NAT3|PAAT|SNAT4 | |
| Cytomap | 19q13.32 | 12q13.11 | |
| Type of gene | protein-coding | protein-coding | |
| Description | apolipoprotein C-I | sodium-coupled neutral amino acid transporter 4N amino acid transporter 3Na(+)-coupled neutral amino acid transporter 4amino acid transporter A3amino acid transporter system A3system A amino acid transporter 3system N amino acid transporter 3 | |
| Modification date | 20180519 | 20180527 | |
| UniProtAcc | P02654 | Q969I6 | |
| Ensembl transtripts involved in fusion gene | ENST00000588750, ENST00000588802, ENST00000252491, ENST00000592885, ENST00000589781, ENST00000586638, | ENST00000447411, ENST00000266579, | |
| Fusion gene scores | * DoF score | 4 X 2 X 4=32 | 1 X 1 X 1=1 |
| # samples | 4 | 1 | |
| ** MAII score | log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(1/1*10)=3.32192809488736 | |
| Context | PubMed: APOC1 [Title/Abstract] AND SLC38A4 [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 |
| Hgene | APOC1 | GO:0010900 | negative regulation of phosphatidylcholine catabolic process | 2302419 |
| Hgene | APOC1 | GO:0010916 | negative regulation of very-low-density lipoprotein particle clearance | 1917954 |
| Hgene | APOC1 | GO:0032375 | negative regulation of cholesterol transport | 10978346 |
| Hgene | APOC1 | GO:0033344 | cholesterol efflux | 11162594 |
| Hgene | APOC1 | GO:0033700 | phospholipid efflux | 11162594 |
| Hgene | APOC1 | GO:0034369 | plasma lipoprotein particle remodeling | 10978346 |
| Hgene | APOC1 | GO:0034382 | chylomicron remnant clearance | 4020294 |
| Hgene | APOC1 | GO:0045717 | negative regulation of fatty acid biosynthetic process | 15576844 |
| Hgene | APOC1 | GO:0045833 | negative regulation of lipid metabolic process | 182536 |
| Hgene | APOC1 | GO:0048261 | negative regulation of receptor-mediated endocytosis | 1917954 |
| Hgene | APOC1 | GO:0050995 | negative regulation of lipid catabolic process | 15576844 |
| Hgene | APOC1 | GO:0051005 | negative regulation of lipoprotein lipase activity | 15576844 |
| 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 | LIHC | TCGA-2Y-A9HB-01A | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| * 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 |
| intron-intron | ENST00000588750 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| intron-intron | ENST00000588750 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000588802 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000588802 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000252491 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000252491 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000592885 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000592885 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000589781 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000589781 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000586638 | ENST00000447411 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
| 5CDS-intron | ENST00000586638 | ENST00000266579 | APOC1 | chr19 | 45422606 | + | SLC38A4 | chr12 | 47226191 | - |
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FusionProtFeatures for APOC1_SLC38A4 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| APOC1 | SLC38A4 |