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Fusion gene ID: 15000 |
FusionGeneSummary for GNPTAB_FGD6 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: GNPTAB_FGD6 | Fusion gene ID: 15000 | Hgene | Tgene | Gene symbol | GNPTAB | FGD6 | Gene ID | 79158 | 55785 |
| Gene name | N-acetylglucosamine-1-phosphate transferase subunits alpha and beta | FYVE, RhoGEF and PH domain containing 6 | |
| Synonyms | GNPTA|ICD | ZFYVE24 | |
| Cytomap | 12q23.2 | 12q22 | |
| Type of gene | protein-coding | protein-coding | |
| Description | N-acetylglucosamine-1-phosphotransferase subunits alpha/betaGlcNAc phosphotransferaseN-acetylglucosamine-1-phosphate transferase alpha and beta subunitsUDP-N-acetylglucosamine-1-phosphotransferase subunits alpha/betaUDP-N-acetylglucosamine-lysosomal-e | FYVE, RhoGEF and PH domain-containing protein 6zinc finger FYVE domain-containing protein 24 | |
| Modification date | 20180523 | 20180519 | |
| UniProtAcc | Q3T906 | Q6ZV73 | |
| Ensembl transtripts involved in fusion gene | ENST00000299314, ENST00000549940, ENST00000392919, ENST00000549165, | ENST00000343958, ENST00000546711, ENST00000549499, ENST00000550368, | |
| Fusion gene scores | * DoF score | 8 X 8 X 4=256 | 4 X 4 X 2=32 |
| # samples | 9 | 4 | |
| ** MAII score | log2(9/256*10)=-1.50814690367033 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: GNPTAB [Title/Abstract] AND FGD6 [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 | GNPTAB | GO:0046835 | carbohydrate phosphorylation | 19955174|23733939 |
| 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 | LD | SARC | TCGA-DX-A23V-01A | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| * 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 | ENST00000299314 | ENST00000343958 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| Frame-shift | ENST00000299314 | ENST00000546711 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| Frame-shift | ENST00000299314 | ENST00000549499 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| 5CDS-intron | ENST00000299314 | ENST00000550368 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549940 | ENST00000343958 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549940 | ENST00000546711 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549940 | ENST00000549499 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-intron | ENST00000549940 | ENST00000550368 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000392919 | ENST00000343958 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000392919 | ENST00000546711 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000392919 | ENST00000549499 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-intron | ENST00000392919 | ENST00000550368 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549165 | ENST00000343958 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549165 | ENST00000546711 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-3CDS | ENST00000549165 | ENST00000549499 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
| intron-intron | ENST00000549165 | ENST00000550368 | GNPTAB | chr12 | 102142879 | - | FGD6 | chr12 | 95566520 | - |
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FusionProtFeatures for GNPTAB_FGD6 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| GNPTAB | FGD6 |
| Catalyzes the formation of mannose 6-phosphate (M6P)markers on high mannose type oligosaccharides in the Golgiapparatus. M6P residues are required to bind to the M6P receptors(MPR), which mediate the vesicular transport of lysosomal enzymesto the endosomal/prelysosomal compartment.{ECO:0000269|PubMed:19955174, ECO:0000269|PubMed:23733939,ECO:0000269|PubMed:28918368}. | May activate CDC42, a member of the Ras-like family ofRho- and Rac proteins, by exchanging bound GDP for free GTP. Mayplay a role in regulating the actin cytoskeleton and cell shape(By similarity). {ECO:0000250}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at . * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for GNPTAB_FGD6 |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for GNPTAB_FGD6 |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| GNPTAB | DISC1, APP, MAPK1, PSMA1, FAM90A1, STAMBPL1, ZNF250, AEN, PDYN, SGCZ, B3GALT2, RASSF7, FAM134C, PICK1, ANAPC15, THOC2, IGSF6, ZPLD1, FAM3B, PXYLP1, GNPTG | FGD6 | GRB2, NPM1, DBNL, GBA, PDGFRB, CTR9, PLK2, CCDC102B, KCTD3, KIF13B, CGN, ZBTB21, KSR1, CBY1, TRIM25 |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for GNPTAB_FGD6 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for GNPTAB_FGD6 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | GNPTAB | C0033788 | Pseudo-Hurler Polydystrophy | 14 | CTD_human;ORPHANET;UNIPROT |
| Hgene | GNPTAB | C2673377 | MUCOLIPIDOSIS II ALPHA/BETA (disorder) | 10 | CTD_human;UNIPROT |
| Tgene | FGD6 | C0345967 | Malignant mesothelioma | 1 | CTD_human |
| Tgene | FGD6 | C2237660 | exudative macular degeneration | 1 | CTD_human |
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