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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:CMTM4-GET4 (FusionGDB2 ID:17565) |
Fusion Gene Summary for CMTM4-GET4 |
Fusion gene summary |
Fusion gene information | Fusion gene name: CMTM4-GET4 | Fusion gene ID: 17565 | Hgene | Tgene | Gene symbol | CMTM4 | GET4 | Gene ID | 146223 | 51608 |
Gene name | CKLF like MARVEL transmembrane domain containing 4 | guided entry of tail-anchored proteins factor 4 | |
Synonyms | CKLFSF4 | C7orf20|CEE|CGI-20|TRC35 | |
Cytomap | 16q21-q22.1 | 7p22.3 | |
Type of gene | protein-coding | protein-coding | |
Description | CKLF-like MARVEL transmembrane domain-containing protein 4chemokine-like factor super family 4chemokine-like factor superfamily member 4 | Golgi to ER traffic protein 4 homologH_NH1244M04.5conserved edge expressed proteinconserved edge proteingolgi to ER traffic protein 4transmembrane domain recognition complex 35 kDa subunittransmembrane domain recognition complex, 35kDa | |
Modification date | 20200329 | 20200313 | |
UniProtAcc | Q8IZR5 | Q7L5D6 | |
Ensembl transtripts involved in fusion gene | ENST00000330687, ENST00000394106, ENST00000563952, | ENST00000407192, ENST00000265857, | |
Fusion gene scores | * DoF score | 9 X 7 X 5=315 | 14 X 5 X 8=560 |
# samples | 10 | 14 | |
** MAII score | log2(10/315*10)=-1.65535182861255 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(14/560*10)=-2 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: CMTM4 [Title/Abstract] AND GET4 [Title/Abstract] AND fusion [Title/Abstract] | ||
Most frequent breakpoint | CMTM4(66655964)-GET4(925692), # 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 | GET4 | GO:0071816 | tail-anchored membrane protein insertion into ER membrane | 25535373 |
Fusion gene breakpoints across CMTM4 (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 GET4 (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 | STAD | TCGA-BR-6455 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
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Fusion Gene ORF analysis for CMTM4-GET4 |
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 |
5CDS-5UTR | ENST00000330687 | ENST00000407192 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
In-frame | ENST00000330687 | ENST00000265857 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
intron-3CDS | ENST00000394106 | ENST00000265857 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
intron-3CDS | ENST00000563952 | ENST00000265857 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
intron-5UTR | ENST00000394106 | ENST00000407192 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
intron-5UTR | ENST00000563952 | ENST00000407192 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + |
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) |
ENST00000330687 | CMTM4 | chr16 | 66655964 | - | ENST00000265857 | GET4 | chr7 | 925692 | + | 2646 | 805 | 134 | 1633 | 499 |
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 |
ENST00000330687 | ENST00000265857 | CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + | 0.0047304 | 0.9952696 |
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Fusion Genomic Features for CMTM4-GET4 |
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) |
CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + | 0.002399684 | 0.9976004 |
CMTM4 | chr16 | 66655964 | - | GET4 | chr7 | 925692 | + | 0.002399684 | 0.9976004 |
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. |
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Fusion Protein Features for CMTM4-GET4 |
Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr16:66655964/chr7:925692) - 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 |
CMTM4 | GET4 |
FUNCTION: Acts as a backup for CMTM6 to regulate plasma membrane expression of PD-L1/CD274, an immune inhibitory ligand critical for immune tolerance to self and antitumor immunity. May protect PD-L1/CD274 from being polyubiquitinated and targeted for degradation. {ECO:0000269|PubMed:28813410}. | FUNCTION: As part of a cytosolic protein quality control complex, the BAG6/BAT3 complex, maintains misfolded and hydrophobic patches-containing proteins in a soluble state and participates in their proper delivery to the endoplasmic reticulum or alternatively can promote their sorting to the proteasome where they undergo degradation (PubMed:20676083, PubMed:21636303, PubMed:21743475, PubMed:28104892). The BAG6/BAT3 complex is involved in the post-translational delivery of tail-anchored/type II transmembrane proteins to the endoplasmic reticulum membrane. Recruited to ribosomes, it interacts with the transmembrane region of newly synthesized tail-anchored proteins and together with SGTA and ASNA1 mediates their delivery to the endoplasmic reticulum (PubMed:20676083, PubMed:28104892, PubMed:25535373). Client proteins that cannot be properly delivered to the endoplasmic reticulum are ubiquitinated and sorted to the proteasome (PubMed:28104892). Similarly, the BAG6/BAT3 complex also functions as a sorting platform for proteins of the secretory pathway that are mislocalized to the cytosol either delivering them to the proteasome for degradation or to the endoplasmic reticulum (PubMed:21743475). The BAG6/BAT3 complex also plays a role in the endoplasmic reticulum-associated degradation (ERAD), a quality control mechanism that eliminates unwanted proteins of the endoplasmic reticulum through their retrotranslocation to the cytosol and their targeting to the proteasome. It maintains these retrotranslocated proteins in an unfolded yet soluble state condition in the cytosol to ensure their proper delivery to the proteasome (PubMed:21636303). {ECO:0000269|PubMed:20676083, ECO:0000269|PubMed:21636303, ECO:0000269|PubMed:21743475, ECO:0000269|PubMed:25535373, ECO:0000269|PubMed:28104892}. |
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 |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000330687 | - | 4 | 5 | 49_176 | 207 | 235.0 | Domain | MARVEL |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000330687 | - | 4 | 5 | 123_143 | 207 | 235.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000330687 | - | 4 | 5 | 151_171 | 207 | 235.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000330687 | - | 4 | 5 | 59_79 | 207 | 235.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000330687 | - | 4 | 5 | 85_105 | 207 | 235.0 | Transmembrane | Helical |
Tgene | GET4 | chr16:66655964 | chr7:925692 | ENST00000265857 | 0 | 9 | 195_271 | 51 | 328.0 | Region | Interacts with BAG6 | |
Tgene | GET4 | chr16:66655964 | chr7:925692 | ENST00000407192 | 0 | 8 | 195_271 | 0 | 275.0 | Region | Interacts with BAG6 |
- 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 |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000394106 | - | 1 | 4 | 49_176 | 0 | 209.0 | Domain | MARVEL |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000563952 | - | 1 | 4 | 49_176 | 0 | 180.0 | Domain | MARVEL |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000394106 | - | 1 | 4 | 123_143 | 0 | 209.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000394106 | - | 1 | 4 | 151_171 | 0 | 209.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000394106 | - | 1 | 4 | 59_79 | 0 | 209.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000394106 | - | 1 | 4 | 85_105 | 0 | 209.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000563952 | - | 1 | 4 | 123_143 | 0 | 180.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000563952 | - | 1 | 4 | 151_171 | 0 | 180.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000563952 | - | 1 | 4 | 59_79 | 0 | 180.0 | Transmembrane | Helical |
Hgene | CMTM4 | chr16:66655964 | chr7:925692 | ENST00000563952 | - | 1 | 4 | 85_105 | 0 | 180.0 | Transmembrane | Helical |
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Fusion Gene Sequence for CMTM4-GET4 |
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. |
>17565_17565_1_CMTM4-GET4_CMTM4_chr16_66655964_ENST00000330687_GET4_chr7_925692_ENST00000265857_length(transcript)=2646nt_BP=805nt AGCGGACCGAGCCGCAGCCGCAGCCGGGCGGCGGGCGAGAGGCGGCGGCGGCGGGCGGGCCGCGGGCAGTCAGTCGGGCGGCGGCGGCGG CGGCGGCGGCGGCGATGCGGCGGCCCCGCTGAGTCCGCCCGCTCCTGGCGCCGGGAGCCAGCCGCGCGAGGCGGCCCGGGCCGGGCGGCA GCATGCGGAGCGGCGAGGAGCTGGACGGCTTCGAGGGCGAGGCCTCGAGCACCTCCATGATCTCGGGCGCCAGCAGCCCGTACCAGCCCA CCACCGAGCCGGTGAGCCAGCGCCGCGGGCTGGCCGGCCTGCGCTGCGACCCCGACTACCTGCGCGGCGCGCTCGGCCGCCTCAAGGTCG CCCAAGTGATCTTGGCCCTGATTGCATTCATCTGCATAGAGACCATCATGGCATGCTCCCCGTGTGAAGGCCTCTACTTTTTTGAGTTTG TGAGCTGCAGTGCGTTTGTGGTGACTGGCGTCTTGCTGATTATGTTCAGTCTCAACCTGCACATGAGGATCCCCCAGATCAACTGGAATC TGACAGATTTGGTCAACACTGGACTCAGCGCTTTCCTTTTCTTTATTGCTTCAATCGTACTGGCTGCTTTAAACCATAGAGCCGGAGCAG AAATTGCTGCCGTGATATTTGGCTTCTTGGCGACTGCGGCATATGCAGTGAACACATTCCTGGCAGTGCAGAAATGGAGAGTCAGCGTCC GCCAGCAGAGCACCAATGACTACATCCGAGCCCGCACGGAGTCCAGGGATGTGGACAGTCGCCCTGAGATCCAGCGCCTGGACACGTACA TGTCCCAGAGCAAGCACACGGAGGCCCGGGAGCTCATGTACTCGGGAGCCCTGCTCTTCTTCAGCCATGGCCAGCAAAACAGTGCAGCAG ACTTGTCCATGCTGGTCCTGGAGTCCCTGGAGAAGGCGGAAGTGGAGGTGGCTGACGAGCTGCTGGAAAATCTGGCTAAAGTGTTCAGCC TGATGGACCCCAACTCTCCTGAGCGCGTGACCTTTGTGTCCAGAGCCCTGAAGTGGTCCAGTGGGGGCTCCGGGAAGCTGGGCCACCCCC GGCTGCACCAGCTGCTGGCCCTCACCCTGTGGAAAGAACAAAACTATTGTGAGTCGAGGTATCATTTTCTGCACTCAGCGGACGGGGAGG GCTGTGCCAACATGCTGGTGGAGTATTCCACGTCCCGCGGCTTCCGCAGCGAGGTGGACATGTTCGTGGCCCAGGCCGTGCTACAGTTTC TCTGTTTAAAAAACAAAAGTAGCGCATCGGTGGTCTTCACGACGTACACCCAGAAGCACCCGTCCATCGAGGACGGGCCTCCGTTTGTGG AGCCGCTGCTTAACTTCATCTGGTTCCTGCTGCTGGCTGTGGACGGTGGGAAGCTGACGGTGTTCACTGTGCTGTGTGAGCAGTACCAGC CATCCCTCCGGCGGGACCCCATGTACAACGAGTACCTCGACCGCATAGGACAGCTGTTCTTCGGCGTCCCGCCCAAGCAGACGTCTTCCT ACGGGGGCCTGCTCGGGAACCTTCTGACCAGCCTCATGGGCTCCTCAGAGCAGGAGGATGGGGAGGAGAGCCCCAGCGACGGCAGCCCCA TCGAGCTGGACTGAACTGGCCAGGCCACGTGGAGACACCACGGTCGACGACGGCTGGAGGGACGTTTCAGAGGCGAGTCCTGGGTGGCTC CTCGCCTTGGGGGCTCCTGGCCCTGAGGCTGGCGGTGGCCGCATGCCGGCGCGTGTCTGTTTCTGTGCGGCGGCTCAGGGTGGCGCGGCT GCTGCTCACTGTGCTGCTGGGACCCAAGAGTGGGGCGTCGCCCCTGCTGGCCGCCGCGTCCCCCGAGATTGACCCACAATAAAGCACAGG CCTTACCGCGGCGTCACCCTCTCCCACTCCTTTGTTCTGGGTCCTTTCGGGAGGGCTGATGGGCAGCACAGGAGGCCCGTCCTCGGGGGG CTGCGCACATCACGCTCCTTGCCGGGCGTCCGGCACAGCTGCGGTCACCAAAGCAGGTGCTGGCCCTCGGACCTGAGAGCCCAGCCAGGG CCCATGTGGTCTGCAAATGGGAGCGGCTGTTTTTGAACACGGGGTCATTCTGCAGTCAGGACGAACCGGTCCCCGTCGCAGACGGAGTGC ACGTGCCCTGCGCCACATCCTCACGCTCGGTGGAGGGACGCGTGCGGCGGGACGGTGCCTACGGGTACTTGCAGCTGTGTCCCATGTGGC ATCCCAGAGCTGCGCCCTGCTGGTCTCTGTGAGCGCCACGCTGCTGTGCTGGAAATGCCGCTTTAAAAAGGGATACCGTGGGACTCTGCC CGTCTCTTTCATAACGCAATATTTATTTGTATTGGGTGATGATTGATTCTTTCGACCTAACATTTTGGGTTTTAACCAAATAACCGGTCC AGGAGTGAGCAGCTCCGTTCTGTCAGATGCTACTCCAAATGTTACCAGAACGATGACAAAAGGGGAGACGCTCTATTTTTTCACAGTTAA ATGACAGTTGTAGATTGATACGCAGTTGTGCATGGGAAGGGGAAACGCACAGCTTTATTTACTGTAAAGTGGAATTTCAGGAAGGCTTGT >17565_17565_1_CMTM4-GET4_CMTM4_chr16_66655964_ENST00000330687_GET4_chr7_925692_ENST00000265857_length(amino acids)=499AA_BP=224 MAPGASRARRPGPGGSMRSGEELDGFEGEASSTSMISGASSPYQPTTEPVSQRRGLAGLRCDPDYLRGALGRLKVAQVILALIAFICIET IMACSPCEGLYFFEFVSCSAFVVTGVLLIMFSLNLHMRIPQINWNLTDLVNTGLSAFLFFIASIVLAALNHRAGAEIAAVIFGFLATAAY AVNTFLAVQKWRVSVRQQSTNDYIRARTESRDVDSRPEIQRLDTYMSQSKHTEARELMYSGALLFFSHGQQNSAADLSMLVLESLEKAEV EVADELLENLAKVFSLMDPNSPERVTFVSRALKWSSGGSGKLGHPRLHQLLALTLWKEQNYCESRYHFLHSADGEGCANMLVEYSTSRGF RSEVDMFVAQAVLQFLCLKNKSSASVVFTTYTQKHPSIEDGPPFVEPLLNFIWFLLLAVDGGKLTVFTVLCEQYQPSLRRDPMYNEYLDR -------------------------------------------------------------- |
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Fusion Gene PPI Analysis for CMTM4-GET4 |
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 |
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Related Drugs for CMTM4-GET4 |
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 |
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Related Diseases for CMTM4-GET4 |
Diseases associated with fusion partners. (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |