|
||||||
|
 | Fusion Gene Summary |
| Fusion Gene ORF analysis |
| Fusion Genomic Features |
| Fusion Protein Features |
| Fusion Gene Sequence |
| Fusion Gene PPI analysis |
| Related Drugs |
| Related Diseases |
Fusion gene:MYO18A-RARA (FusionGDB2 ID:56598) |
Fusion Gene Summary for MYO18A-RARA |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: MYO18A-RARA | Fusion gene ID: 56598 | Hgene | Tgene | Gene symbol | MYO18A | RARA | Gene ID | 399687 | 5914 |
| Gene name | myosin XVIIIA | retinoic acid receptor alpha | |
| Synonyms | MAJN|MYSPDZ|SP-R210|SPR210 | NR1B1|RAR | |
| Cytomap | 17q11.2 | 17q21.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | unconventional myosin-XVIIIaSP-A receptor subunit SP-R210 alphaSmolecule associated with JAK3 N-terminusmyosin 18Amyosin containing PDZ domainmyosin containing a PDZ domainsurfactant protein receptor SP-R210 | retinoic acid receptor alphaRAR-alphanuclear receptor subfamily 1 group B member 1nucleophosmin-retinoic acid receptor alpha fusion protein NPM-RAR long formretinoic acid nuclear receptor alpha variant 1retinoic acid nuclear receptor alpha variant 2 | |
| Modification date | 20200313 | 20200327 | |
| UniProtAcc | Q92614 | P10276 | |
| Ensembl transtripts involved in fusion gene | ENST00000354329, ENST00000527372, ENST00000531253, ENST00000529578, ENST00000533112, | ENST00000254066, ENST00000394089, ENST00000394081, ENST00000394086, ENST00000420042, ENST00000425707, | |
| Fusion gene scores | * DoF score | 26 X 21 X 12=6552 | 29 X 39 X 17=19227 |
| # samples | 27 | 55 | |
| ** MAII score | log2(27/6552*10)=-4.60090404459018 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(55/19227*10)=-5.12755824682814 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: MYO18A [Title/Abstract] AND RARA [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | MYO18A(27507331)-RARA(38504568), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | |||
| * 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 |
| Tgene | RARA | GO:0007165 | signal transduction | 2825025 |
| Tgene | RARA | GO:0030853 | negative regulation of granulocyte differentiation | 19917671 |
| Tgene | RARA | GO:0032689 | negative regulation of interferon-gamma production | 18416830 |
| Tgene | RARA | GO:0032720 | negative regulation of tumor necrosis factor production | 18416830 |
| Tgene | RARA | GO:0032736 | positive regulation of interleukin-13 production | 18416830 |
| Tgene | RARA | GO:0032753 | positive regulation of interleukin-4 production | 18416830 |
| Tgene | RARA | GO:0032754 | positive regulation of interleukin-5 production | 18416830 |
| Tgene | RARA | GO:0045630 | positive regulation of T-helper 2 cell differentiation | 18416830 |
| Tgene | RARA | GO:0045892 | negative regulation of transcription, DNA-templated | 20080953 |
| Tgene | RARA | GO:0045893 | positive regulation of transcription, DNA-templated | 18845237|19850744|20080953 |
| Tgene | RARA | GO:0045944 | positive regulation of transcription by RNA polymerase II | 19850744|21131358 |
| Tgene | RARA | GO:0071300 | cellular response to retinoic acid | 19917671 |
| Tgene | RARA | GO:0071391 | cellular response to estrogen stimulus | 20080953 |
| Fusion gene breakpoints across MYO18A (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
| Fusion gene breakpoints across RARA (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
| Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0) * 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. |
| Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChimerDB4 | CESC | TCGA-VS-A8EJ-01A | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
Top |
Fusion Gene ORF analysis for MYO18A-RARA |
| 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 |
| 5UTR-3CDS | ENST00000354329 | ENST00000254066 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-3CDS | ENST00000354329 | ENST00000394089 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-3CDS | ENST00000527372 | ENST00000254066 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-3CDS | ENST00000527372 | ENST00000394089 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-3CDS | ENST00000531253 | ENST00000254066 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-3CDS | ENST00000531253 | ENST00000394089 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000354329 | ENST00000394081 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000354329 | ENST00000394086 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000354329 | ENST00000420042 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000354329 | ENST00000425707 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000527372 | ENST00000394081 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000527372 | ENST00000394086 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000527372 | ENST00000420042 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000527372 | ENST00000425707 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000531253 | ENST00000394081 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000531253 | ENST00000394086 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000531253 | ENST00000420042 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| 5UTR-intron | ENST00000531253 | ENST00000425707 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-3CDS | ENST00000529578 | ENST00000254066 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-3CDS | ENST00000529578 | ENST00000394089 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-3CDS | ENST00000533112 | ENST00000254066 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-3CDS | ENST00000533112 | ENST00000394089 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000529578 | ENST00000394081 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000529578 | ENST00000394086 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000529578 | ENST00000420042 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000529578 | ENST00000425707 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000533112 | ENST00000394081 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000533112 | ENST00000394086 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000533112 | ENST00000420042 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| intron-intron | ENST00000533112 | ENST00000425707 | MYO18A | chr17 | 27507331 | - | RARA | chr17 | 38504568 | + |
| ORFfinder result based on the fusion transcript sequence of in-frame fusion genes. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
Top |
Fusion Genomic Features for MYO18A-RARA |
| FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints. |
| Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
| Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page. |
| Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page. |
 |
Top |
Fusion Protein Features for MYO18A-RARA |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:27507331/:38504568) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| MYO18A | RARA |
| FUNCTION: May link Golgi membranes to the cytoskeleton and participate in the tensile force required for vesicle budding from the Golgi. Thereby, may play a role in Golgi membrane trafficking and could indirectly give its flattened shape to the Golgi apparatus (PubMed:19837035, PubMed:23345592). Alternatively, in concert with LURAP1 and CDC42BPA/CDC42BPB, has been involved in modulating lamellar actomyosin retrograde flow that is crucial to cell protrusion and migration (PubMed:18854160). May be involved in the maintenance of the stromal cell architectures required for cell to cell contact (By similarity). Regulates trafficking, expression, and activation of innate immune receptors on macrophages. Plays a role to suppress inflammatory responsiveness of macrophages via a mechanism that modulates CD14 trafficking (PubMed:25965346). Acts as a receptor of surfactant-associated protein A (SFTPA1/SP-A) and plays an important role in internalization and clearance of SFTPA1-opsonized S.aureus by alveolar macrophages (PubMed:16087679, PubMed:21123169). Strongly enhances natural killer cell cytotoxicity (PubMed:27467939). {ECO:0000250|UniProtKB:Q9JMH9, ECO:0000269|PubMed:16087679, ECO:0000269|PubMed:18854160, ECO:0000269|PubMed:19837035, ECO:0000269|PubMed:21123169, ECO:0000269|PubMed:23345592, ECO:0000269|PubMed:25965346, ECO:0000269|PubMed:27467939}. | FUNCTION: Receptor for retinoic acid (PubMed:19850744, PubMed:16417524, PubMed:20215566). Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes (PubMed:28167758). The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5 (PubMed:28167758, PubMed:19398580). In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone deacetylation, chromatin condensation and transcriptional suppression (PubMed:16417524). On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation (PubMed:9267036, PubMed:19850744, PubMed:20215566). Formation of a complex with histone deacetylases might lead to inhibition of RARE DNA element binding and to transcriptional repression (PubMed:28167758). Transcriptional activation and RARE DNA element binding might be supported by the transcription factor KLF2 (PubMed:28167758). RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis (By similarity). Has a role in the survival of early spermatocytes at the beginning prophase of meiosis (By similarity). In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes (By similarity). In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (By similarity). Together with RXRA, positively regulates microRNA-10a expression, thereby inhibiting the GATA6/VCAM1 signaling response to pulsatile shear stress in vascular endothelial cells (PubMed:28167758). In association with HDAC3, HDAC5 and HDAC7 corepressors, plays a role in the repression of microRNA-10a and thereby promotes the inflammatory response (PubMed:28167758). {ECO:0000250|UniProtKB:P11416, ECO:0000269|PubMed:16417524, ECO:0000269|PubMed:19398580, ECO:0000269|PubMed:19850744, ECO:0000269|PubMed:20215566, ECO:0000269|PubMed:28167758, ECO:0000269|PubMed:9267036}. |
| 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 |
Top |
Fusion Gene Sequence for MYO18A-RARA |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
Top |
Fusion Gene PPI Analysis for MYO18A-RARA |
| 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 |
| - 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 |
Top |
Related Drugs for MYO18A-RARA |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.8 2021-05-08) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
Related Diseases for MYO18A-RARA |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2021-Present -The University of Texas Health Science Center at Houston (UTHealth)
Web File Viewing | Emergency Information |Campus Carry|Site Policies