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Fusion Protein:EPHA4-COL4A3 |
Fusion Gene and Fusion Protein Summary |
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Fusion partner gene information | Fusion gene name: EPHA4-COL4A3 | FusionPDB ID: 26960 | FusionGDB2.0 ID: 26960 | Hgene | Tgene | Gene symbol | EPHA4 | COL4A3 | Gene ID | 2043 | 1285 |
Gene name | EPH receptor A4 | collagen type IV alpha 3 chain | |
Synonyms | EK8|HEK8|SEK|TYRO1 | ATS2|ATS3 | |
Cytomap | 2q36.1 | 2q36.3 | |
Type of gene | protein-coding | protein-coding | |
Description | ephrin type-A receptor 4EPH-like kinase 8TYRO1 protein tyrosine kinasereceptor protein-tyrosine kinase HEK8tyrosine-protein kinase TYRO1tyrosine-protein kinase receptor SEK | collagen alpha-3(IV) chaincollagen IV, alpha-3 polypeptidecollagen, type IV, alpha 3 (Goodpasture antigen)tumstatin | |
Modification date | 20200313 | 20200313 | |
UniProtAcc | P54764 Main function of 5'-partner protein: FUNCTION: Receptor tyrosine kinase which binds membrane-bound ephrin family ligands residing on adjacent cells, leading to contact-dependent bidirectional signaling into neighboring cells. The signaling pathway downstream of the receptor is referred to as forward signaling while the signaling pathway downstream of the ephrin ligand is referred to as reverse signaling. Highly promiscuous, it has the unique property among Eph receptors to bind and to be physiologically activated by both GPI-anchored ephrin-A and transmembrane ephrin-B ligands including EFNA1 and EFNB3. Upon activation by ephrin ligands, modulates cell morphology and integrin-dependent cell adhesion through regulation of the Rac, Rap and Rho GTPases activity. Plays an important role in the development of the nervous system controlling different steps of axonal guidance including the establishment of the corticospinal projections. May also control the segregation of motor and sensory axons during neuromuscular circuit development. In addition to its role in axonal guidance plays a role in synaptic plasticity. Activated by EFNA1 phosphorylates CDK5 at 'Tyr-15' which in turn phosphorylates NGEF regulating RHOA and dendritic spine morphogenesis. In the nervous system, plays also a role in repair after injury preventing axonal regeneration and in angiogenesis playing a role in central nervous system vascular formation. Additionally, its promiscuity makes it available to participate in a variety of cell-cell signaling regulating for instance the development of the thymic epithelium. During development of the cochlear organ of Corti, regulates pillar cell separation by forming a ternary complex with ADAM10 and CADH1 which facilitates the cleavage of CADH1 by ADAM10 and disruption of adherens junctions (By similarity). {ECO:0000250|UniProtKB:Q03137, ECO:0000269|PubMed:17143272}. | . | |
Ensembl transtripts involved in fusion gene | ENST ids | ENST00000281821, ENST00000392071, ENST00000409854, ENST00000409938, ENST00000469354, | ENST00000468753, ENST00000396578, |
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 4 X 3 X 3=36 | 3 X 4 X 2=24 |
# samples | 4 | 4 | |
** MAII score | log2(4/36*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(4/24*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
Fusion gene context | PubMed: EPHA4 [Title/Abstract] AND COL4A3 [Title/Abstract] AND fusion [Title/Abstract] | ||
Fusion neoantigen context | PubMed: EPHA4 [Title/Abstract] AND COL4A3 [Title/Abstract] AND neoantigen [Title/Abstract] | ||
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | EPHA4(222428451)-COL4A3(228102684), # samples:2 | ||
Anticipated loss of major functional domain due to fusion event. | EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. EPHA4-COL4A3 seems lost the major protein functional domain in Hgene partner, which is a kinase due to the frame-shifted ORF. |
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | EPHA4 | GO:0018108 | peptidyl-tyrosine phosphorylation | 12775584 |
Hgene | EPHA4 | GO:0046777 | protein autophosphorylation | 12775584 |
Hgene | EPHA4 | GO:2001108 | positive regulation of Rho guanyl-nucleotide exchange factor activity | 12775584 |
Tgene | COL4A3 | GO:0006919 | activation of cysteine-type endopeptidase activity involved in apoptotic process | 10766752 |
Tgene | COL4A3 | GO:0016525 | negative regulation of angiogenesis | 10766752|12682293 |
Tgene | COL4A3 | GO:0072577 | endothelial cell apoptotic process | 10766752 |
Tgene | COL4A3 | GO:1905563 | negative regulation of vascular endothelial cell proliferation | 10766752 |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr2:222428451/chr2:228102684) - 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. |
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![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Fusion Amino Acid Sequences |
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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) |
ENST00000281821 | EPHA4 | chr2 | 222428451 | - | ENST00000396578 | COL4A3 | chr2 | 228102684 | + | 8713 | 865 | 601 | 5790 | 1729 |
ENST00000409854 | EPHA4 | chr2 | 222428451 | - | ENST00000396578 | COL4A3 | chr2 | 228102684 | + | 8706 | 858 | 594 | 5783 | 1729 |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
ENST00000281821 | ENST00000396578 | EPHA4 | chr2 | 222428451 | - | COL4A3 | chr2 | 228102684 | + | 0.001288369 | 0.9987116 |
ENST00000409854 | ENST00000396578 | EPHA4 | chr2 | 222428451 | - | COL4A3 | chr2 | 228102684 | + | 0.001275697 | 0.9987243 |
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Get the fusion protein sequences from here. |
Fusion protein sequence information is available in the fasta format. >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP |
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Fusion Protein Breakpoint Sequences for EPHA4-COL4A3 |
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Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Length(fusion protein) | BP in fusion protein | Peptide |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 1161 | PPGHLGPAGPEGAPGSPGSPGLPGKP |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 180 | GTPGNTGPYGLVGVPGCSGSKGEQGF |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 229 | APAKEEDIELDAKGDPGLPGAPGPQG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 346 | PSGLPGESYGSEKGAPGDPGLQGKPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 438 | ARGPQGPSGPPGVPGSPGSSRPGLRG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 473 | SKGERGRPGKDAMGTPGSPGCAGSPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 475 | GERGRPGKDAMGTPGSPGCAGSPGLP |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 485 | MGTPGSPGCAGSPGLPGSPGPPGPPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 541 | GEPGLLCTQCPYIPGPPGLPGLPGLH |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 569 | KGIPGRQGAAGLKGSPGSPGNTGLPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 729 | PGPPGPPGHPGPQGPPGIPGSLGKCG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 739 | GPQGPPGIPGSLGKCGDPGLPGPDGE |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 858 | 88 | ATLGMRSGAENAKGCVCKDKGQCFCD |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 1161 | PPGHLGPAGPEGAPGSPGSPGLPGKP |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 180 | GTPGNTGPYGLVGVPGCSGSKGEQGF |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 229 | APAKEEDIELDAKGDPGLPGAPGPQG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 346 | PSGLPGESYGSEKGAPGDPGLQGKPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 438 | ARGPQGPSGPPGVPGSPGSSRPGLRG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 473 | SKGERGRPGKDAMGTPGSPGCAGSPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 475 | GERGRPGKDAMGTPGSPGCAGSPGLP |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 485 | MGTPGSPGCAGSPGLPGSPGPPGPPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 541 | GEPGLLCTQCPYIPGPPGLPGLPGLH |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 569 | KGIPGRQGAAGLKGSPGSPGNTGLPG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 729 | PGPPGPPGHPGPQGPPGIPGSLGKCG |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 739 | GPQGPPGIPGSLGKCGDPGLPGPDGE |
EPHA4 | chr2 | 222428451 | COL4A3 | chr2 | 228102684 | 865 | 88 | ATLGMRSGAENAKGCVCKDKGQCFCD |
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Potential FusionNeoAntigen Information of EPHA4-COL4A3 in HLA I |
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EPHA4-COL4A3_222428451_228102684.msa |
![]() * We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5) |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA I | FusionNeoAntigen peptide | Binding score | Immunogenic score | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B81:01 | APGSPGSPGL | 0.7402 | 0.7356 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B35:03 | APGSPGSPGL | 0.5102 | 0.8661 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B82:01 | APGSPGSPGL | 0.4288 | 0.8233 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B42:02 | APGSPGSPGL | 0.5891 | 0.8076 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B42:01 | APGSPGSPGL | 0.5439 | 0.8012 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B39:10 | APGSPGSPGL | 0.4497 | 0.9189 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B55:04 | APGSPGSPGL | 0.5893 | 0.602 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B35:13 | APGSPGSPGL | 0.5036 | 0.8719 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B67:01 | APGSPGSPGL | 0.4453 | 0.8957 | 12 | 22 |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 | HLA-B82:02 | APGSPGSPGL | 0.4288 | 0.8233 | 12 | 22 |
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Potential FusionNeoAntigen Information of EPHA4-COL4A3 in HLA II |
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![]() * We used NetMHCIIpan v4.1 (%rank<0.5). |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA II | FusionNeoAntigen peptide | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
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Fusion breakpoint peptide structures of EPHA4-COL4A3 |
![]() * The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA. |
File name | BPseq | Hgene | Tgene | Hchr | Hbp | Tchr | Tbp | AAlen |
6483 | PAGPEGAPGSPGSP | EPHA4 | COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 865 |
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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of EPHA4-COL4A3 |
![]() * We used Glide to predict the interaction between HLAs and neoantigens. |
HLA allele | PDB ID | File name | BPseq | Docking score | Glide score |
HLA-B14:02 | 3BVN | 6483 | PAGPEGAPGSPGSP | -7.9962 | -8.1096 |
HLA-B14:02 | 3BVN | 6483 | PAGPEGAPGSPGSP | -5.70842 | -6.74372 |
HLA-B52:01 | 3W39 | 6483 | PAGPEGAPGSPGSP | -6.83737 | -6.95077 |
HLA-B52:01 | 3W39 | 6483 | PAGPEGAPGSPGSP | -4.4836 | -5.5189 |
HLA-A11:01 | 4UQ2 | 6483 | PAGPEGAPGSPGSP | -10.0067 | -10.1201 |
HLA-A11:01 | 4UQ2 | 6483 | PAGPEGAPGSPGSP | -9.03915 | -10.0745 |
HLA-A24:02 | 5HGA | 6483 | PAGPEGAPGSPGSP | -6.56204 | -6.67544 |
HLA-A24:02 | 5HGA | 6483 | PAGPEGAPGSPGSP | -5.42271 | -6.45801 |
HLA-B44:05 | 3DX8 | 6483 | PAGPEGAPGSPGSP | -7.85648 | -8.89178 |
HLA-B44:05 | 3DX8 | 6483 | PAGPEGAPGSPGSP | -5.3978 | -5.5112 |
HLA-A02:01 | 6TDR | 6483 | PAGPEGAPGSPGSP | -3.37154 | -4.40684 |
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Vaccine Design for the FusionNeoAntigens of EPHA4-COL4A3 |
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Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide sequence | FusionNeoAntigen RNA sequence |
EPHA4-COL4A3 | chr2 | 222428451 | chr2 | 228102684 | 12 | 22 | APGSPGSPGL | AAGGGTTGTGTCTGTAAAGACAAAGGCCAG |
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Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide | FusionNEoAntigen RNA sequence |
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Information of the samples that have these potential fusion neoantigens of EPHA4-COL4A3 |
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Cancer type | Fusion gene | Hchr | Hbp | Henst | Tchr | Tbp | Tenst | Sample |
LUSC | EPHA4-COL4A3 | chr2 | 222428451 | ENST00000281821 | chr2 | 228102684 | ENST00000396578 | TCGA-34-5236-01A |
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Potential target of CAR-T therapy development for EPHA4-COL4A3 |
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![]() * Minus value of BPloci means that the break point is located before the CDS. |
- In-frame and retained 'Transmembrane'. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
![]() * We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image. |
Hgene | Hchr | Hbp | Henst | Tgene | Tchr | Tbp | Tenst | DeepLoc result |
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Related Drugs to EPHA4-COL4A3 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to EPHA4-COL4A3 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Disease | Source | PMID |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |