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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for PTPRF |
 Gene summary |
| Gene information | Gene symbol | PTPRF | Gene ID | 5792 |
| Gene name | protein tyrosine phosphatase receptor type F | |
| Synonyms | BNAH2|LAR | |
| Cytomap | 1p34.2 | |
| Type of gene | protein-coding | |
| Description | receptor-type tyrosine-protein phosphatase FLCA-homologleukocyte antigen-related (LAR) PTP receptorleukocyte antigen-related tyrosine phosphataseleukocyte common antigen relatedprotein tyrosine phosphatase, receptor type, F polypeptidereceptor-linke | |
| Modification date | 20200313 | |
| UniProtAcc | ||
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| PTPRF | GO:0099560 | synaptic membrane adhesion | 26321637 |
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Gene structures and expression levels for PTPRF |
| Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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ENSG00000142949
| Differentially expressed gene analysis across multiple brain tissues between AD and control. |
| Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
| Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
 |
| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| PG | DOWN | ENST00000437607.1 | PTPRF-208:protein_coding:PTPRF | 1.554259e+01 | -9.328963e-01 | 1.163708e-03 | 1.628586e-02 |
| PG | DOWN | ENST00000496043.5 | PTPRF-214:lncRNA:PTPRF | 1.913277e+00 | -1.266294e+00 | 1.210607e-03 | 1.678758e-02 |
| TC | UP | ENST00000429895.5 | PTPRF-206:protein_coding:PTPRF | 1.442697e+02 | 1.248263e+00 | 9.342762e-04 | 9.382733e-03 |
| TC | DOWN | ENST00000372405.1 | PTPRF-202:lncRNA:PTPRF | 6.576134e+00 | -1.757839e+00 | 3.994885e-03 | 2.829517e-02 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for PTPRF |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_108959 | chr1 | 43530903:43531090:43538198:43538277:43545031:43545166 | 43538198:43538277 |
| exon_skip_12214 | chr1 | 43609389:43609498:43612768:43612800:43613618:43613715 | 43612768:43612800 |
| exon_skip_123786 | chr1 | 43592463:43592601:43597748:43598053:43598720:43598913 | 43597748:43598053 |
| exon_skip_137876 | chr1 | 43619680:43619858:43620095:43620221:43620454:43620579 | 43620095:43620221 |
| exon_skip_151900 | chr1 | 43538198:43538277:43545031:43545166:43553492:43553519 | 43545031:43545166 |
| exon_skip_214210 | chr1 | 43598839:43598913:43602071:43602097:43603416:43603527 | 43602071:43602097 |
| exon_skip_223361 | chr1 | 43592457:43592601:43597748:43598053:43598720:43598913 | 43597748:43598053 |
| exon_skip_236186 | chr1 | 43603416:43603533:43603611:43604189:43604903:43605000 | 43603611:43604189 |
| exon_skip_278310 | chr1 | 43569590:43569778:43575910:43575927:43578810:43578848 | 43575910:43575927 |
| exon_skip_81014 | chr1 | 43609383:43609498:43612768:43612800:43613618:43613715 | 43612768:43612800 |
| exon_skip_88437 | chr1 | 43569590:43569778:43575910:43575927:43578810:43578920 | 43575910:43575927 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
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| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
| exon_skip_88437 | MSBB_PG | 2.633071e-01 | 4.061111e-01 | -1.428040e-01 | 2.208759e-03 |
| exon_skip_223361 | MSBB_PG | 3.252174e-01 | 1.805660e-01 | 1.446514e-01 | 9.421518e-07 |
| exon_skip_123786 | Mayo_TC | 4.452439e-01 | 2.557143e-01 | 1.895296e-01 | 3.197243e-05 |
| exon_skip_214210 | Mayo_TC | 2.376829e-01 | 3.544444e-01 | -1.167615e-01 | 8.333526e-04 |
| exon_skip_236186 | Mayo_TC | 7.176829e-01 | 6.004110e-01 | 1.172720e-01 | 2.638298e-02 |
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Open reading frame (ORF) annotation in the exon skipping event for PTPRF |
| Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000359947 | 43545031 | 43545166 | 5CDS-5UTR |
| ENST00000359947 | 43538198 | 43538277 | 5UTR-5UTR |
| ENST00000359947 | 43620095 | 43620221 | Frame-shift |
| ENST00000359947 | 43597748 | 43598053 | In-frame |
| ENST00000359947 | 43602071 | 43602097 | In-frame |
| ENST00000359947 | 43603611 | 43604189 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000359947 | 43545031 | 43545166 | 5CDS-5UTR |
| ENST00000359947 | 43597748 | 43598053 | In-frame |
| ENST00000359947 | 43602071 | 43602097 | In-frame |
| ENST00000359947 | 43603611 | 43604189 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000359947 | 43545031 | 43545166 | 5CDS-5UTR |
| ENST00000359947 | 43538198 | 43538277 | 5UTR-5UTR |
| ENST00000359947 | 43620095 | 43620221 | Frame-shift |
| ENST00000359947 | 43597748 | 43598053 | In-frame |
| ENST00000359947 | 43602071 | 43602097 | In-frame |
| ENST00000359947 | 43603611 | 43604189 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PTPRF |
p-ENSG00000142949_img4.png |
| Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000359947 | 7744 | 1907 | 43597748 | 43598053 | 2155 | 2459 | 605 | 706 |
| ENST00000359947 | 7744 | 1907 | 43603611 | 43604189 | 2800 | 3377 | 820 | 1012 |
| Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000359947 | 7744 | 1907 | 43597748 | 43598053 | 2155 | 2459 | 605 | 706 |
| ENST00000359947 | 7744 | 1907 | 43603611 | 43604189 | 2800 | 3377 | 820 | 1012 |
| Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000359947 | 7744 | 1907 | 43597748 | 43598053 | 2155 | 2459 | 605 | 706 |
| ENST00000359947 | 7744 | 1907 | 43603611 | 43604189 | 2800 | 3377 | 820 | 1012 |
| Lost protein functional features of individual exon skipping events in ROSMAP. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| P10586 | 605 | 706 | 611 | 619 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 622 | 628 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 639 | 652 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 657 | 663 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 667 | 671 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 679 | 690 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 692 | 695 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 699 | 702 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 605 | 706 | 609 | 706 | Domain | Note=Fibronectin type-III 4;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 605 | 706 | 632 | 634 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 646 | 646 | Sequence conflict | Note=Y->H;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P10586 | 605 | 706 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| P10586 | 820 | 1012 | 825 | 830 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 835 | 841 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 852 | 859 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 866 | 871 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 876 | 880 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 887 | 896 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 899 | 909 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 920 | 923 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 925 | 927 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 935 | 937 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 950 | 957 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 963 | 971 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 984 | 987 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 820 | 1012 | 820 | 914 | Domain | Note=Fibronectin type-III 6;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 918 | 1010 | Domain | Note=Fibronectin type-III 7;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 966 | 966 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000269,ECO:0000269;evidence=ECO:0000269|PubMed:16335952,ECO:0000269|PubMed:19349973;Dbxref=PMID:16335952,PMID:19349973 |
| P10586 | 820 | 1012 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Lost protein functional features of individual exon skipping events in MSBB. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| P10586 | 605 | 706 | 611 | 619 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 622 | 628 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 639 | 652 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 657 | 663 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 667 | 671 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 679 | 690 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 692 | 695 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 699 | 702 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 605 | 706 | 609 | 706 | Domain | Note=Fibronectin type-III 4;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 605 | 706 | 632 | 634 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 646 | 646 | Sequence conflict | Note=Y->H;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P10586 | 605 | 706 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| P10586 | 820 | 1012 | 825 | 830 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 835 | 841 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 852 | 859 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 866 | 871 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 876 | 880 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 887 | 896 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 899 | 909 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 920 | 923 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 925 | 927 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 935 | 937 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 950 | 957 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 963 | 971 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 984 | 987 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 820 | 1012 | 820 | 914 | Domain | Note=Fibronectin type-III 6;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 918 | 1010 | Domain | Note=Fibronectin type-III 7;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 966 | 966 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000269,ECO:0000269;evidence=ECO:0000269|PubMed:16335952,ECO:0000269|PubMed:19349973;Dbxref=PMID:16335952,PMID:19349973 |
| P10586 | 820 | 1012 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Lost protein functional features of individual exon skipping events in Mayo. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| P10586 | 605 | 706 | 611 | 619 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 622 | 628 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 639 | 652 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 657 | 663 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 667 | 671 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 679 | 690 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 692 | 695 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 699 | 702 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 605 | 706 | 609 | 706 | Domain | Note=Fibronectin type-III 4;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 605 | 706 | 632 | 634 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4N5U |
| P10586 | 605 | 706 | 646 | 646 | Sequence conflict | Note=Y->H;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P10586 | 605 | 706 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| P10586 | 820 | 1012 | 825 | 830 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 835 | 841 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 852 | 859 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 866 | 871 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 876 | 880 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 887 | 896 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 899 | 909 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DN7 |
| P10586 | 820 | 1012 | 920 | 923 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 925 | 927 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 935 | 937 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 950 | 957 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 963 | 971 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 984 | 987 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2EDY |
| P10586 | 820 | 1012 | 30 | 1907 | Chain | ID=PRO_0000025432;Note=Receptor-type tyrosine-protein phosphatase F |
| P10586 | 820 | 1012 | 820 | 914 | Domain | Note=Fibronectin type-III 6;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 918 | 1010 | Domain | Note=Fibronectin type-III 7;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| P10586 | 820 | 1012 | 966 | 966 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000269,ECO:0000269;evidence=ECO:0000269|PubMed:16335952,ECO:0000269|PubMed:19349973;Dbxref=PMID:16335952,PMID:19349973 |
| P10586 | 820 | 1012 | 30 | 1263 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PTPRF |
| 3'-UTR exon skipping evnets lost miRNA binding. |
| Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for PTPRF |
| - Differential PSIs between mutated versus non-mutated samples. |
| - Depth of Coverage in the skipped exon of the mutated samples. |
| - Sashimi plot in the skipped exon of the mutated samples. |
| - Non-synonymous mutations located in the skipped exons. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| - Non-synonymous mutations located in the skipped exons in CCLE. |
| Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for PTPRF |
| Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
| AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
| ADstage | MSBB | IFG | exon_skip_236186 | 5.217333e-01 | 4.406936e-03 | chr1 | + | 43603416 | 43603533 | 43603611 | 43604189 | 43604903 | 43605000 |
| ADstage | MSBB | IFG | exon_skip_214210 | -5.025041e-01 | 6.427609e-03 | chr1 | + | 43598839 | 43598913 | 43602071 | 43602097 | 43603416 | 43603527 |
| ADstage | MSBB | IFG | exon_skip_88437 | -4.284500e-01 | 2.292150e-02 | chr1 | + | 43569590 | 43569778 | 43575910 | 43575927 | 43578810 | 43578920 |
| CDR | MSBB | IFG | exon_skip_88437 | -4.882737e-01 | 8.385181e-03 | chr1 | + | 43569590 | 43569778 | 43575910 | 43575927 | 43578810 | 43578920 |
| CDR | MSBB | IFG | exon_skip_236186 | 4.417306e-01 | 1.860471e-02 | chr1 | + | 43603416 | 43603533 | 43603611 | 43604189 | 43604903 | 43605000 |
| CDR | MSBB | IFG | exon_skip_214210 | -3.746822e-01 | 4.947547e-02 | chr1 | + | 43598839 | 43598913 | 43602071 | 43602097 | 43603416 | 43603527 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PTPRF |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for PTPRF |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | ZNF638 | exon_skip_223361 | 4.884598e-01 | 4.583560e-10 |
| CB | RBM6 | exon_skip_223361 | 4.990343e-01 | 1.673291e-10 |
| CB | PCBP4 | exon_skip_223361 | -4.688274e-01 | 2.723984e-09 |
| CB | HNRNPH2 | exon_skip_223361 | -4.137245e-01 | 2.310417e-07 |
| CB | RBM4 | exon_skip_223361 | 5.659529e-01 | 1.188915e-13 |
| CB | NUP42 | exon_skip_236186 | -4.591436e-01 | 2.381363e-09 |
| DLPFC | RBFOX2 | exon_skip_236186 | -7.085968e-01 | 7.996953e-46 |
| DLPFC | G3BP2 | exon_skip_236186 | -6.471145e-01 | 4.888704e-36 |
| FL | SRSF2 | exon_skip_223361 | -5.401736e-01 | 2.979792e-15 |
| FL | FXR2 | exon_skip_223361 | -5.112315e-01 | 1.414854e-13 |
| FL | ILF2 | exon_skip_223361 | -5.590414e-01 | 1.957043e-16 |
| FL | HNRNPK | exon_skip_223361 | -5.551760e-01 | 3.467170e-16 |
| FL | RBM24 | exon_skip_223361 | -5.296681e-01 | 1.262581e-14 |
| FL | ENOX1 | exon_skip_223361 | -4.020402e-01 | 1.687803e-08 |
| FL | EIF4G2 | exon_skip_223361 | -4.059340e-01 | 1.190180e-08 |
| FL | HNRNPL | exon_skip_223361 | -5.147945e-01 | 8.970183e-14 |
| FL | CELF1 | exon_skip_223361 | -4.153750e-01 | 5.007389e-09 |
| FL | RBM23 | exon_skip_223361 | -4.136342e-01 | 5.886020e-09 |
| FL | SRSF1 | exon_skip_223361 | -4.912323e-01 | 1.659258e-12 |
| FL | SRSF9 | exon_skip_223361 | -5.364162e-01 | 5.023089e-15 |
| FL | HNRNPH2 | exon_skip_223361 | -4.583048e-01 | 6.853815e-11 |
| FL | ESRP1 | exon_skip_223361 | -4.518401e-01 | 1.359765e-10 |
| FL | SRSF1 | exon_skip_214210 | 4.076392e-01 | 1.787594e-08 |
| FL | SRSF2 | exon_skip_236186 | -5.444626e-01 | 9.920864e-14 |
| FL | RBFOX2 | exon_skip_236186 | -5.044996e-01 | 1.032515e-11 |
| FL | MSI1 | exon_skip_236186 | 5.777705e-01 | 1.255189e-15 |
| FL | HNRNPK | exon_skip_236186 | -5.209619e-01 | 1.639429e-12 |
| FL | G3BP2 | exon_skip_236186 | -6.517753e-01 | 1.021546e-20 |
| FL | RBM24 | exon_skip_236186 | -5.062001e-01 | 8.576486e-12 |
| FL | RBM45 | exon_skip_236186 | -4.787836e-01 | 1.513503e-10 |
| FL | NUP42 | exon_skip_236186 | -4.207916e-01 | 3.019208e-08 |
| FL | RBM23 | exon_skip_236186 | -4.349080e-01 | 9.101000e-09 |
| FL | SRSF1 | exon_skip_236186 | -4.277548e-01 | 1.682578e-08 |
| FL | SRSF9 | exon_skip_236186 | -5.173117e-01 | 2.486671e-12 |
| FL | NOVA1 | exon_skip_236186 | -4.094230e-01 | 7.625860e-08 |
| FL | SRSF2 | exon_skip_81014 | 4.649637e-01 | 6.299420e-09 |
| HCC | RBM6 | exon_skip_88437 | -6.837075e-01 | 1.522061e-38 |
| HCC | IGF2BP2 | exon_skip_88437 | -4.444435e-01 | 1.685782e-14 |
| HCC | SFPQ | exon_skip_223361 | 5.085618e-01 | 3.127089e-19 |
| HCC | RBM6 | exon_skip_223361 | 5.582047e-01 | 1.338531e-23 |
| HCC | SRSF11 | exon_skip_223361 | 4.454155e-01 | 1.301140e-14 |
| HCC | RBM5 | exon_skip_223361 | 5.039431e-01 | 7.350209e-19 |
| HCC | EIF4G2 | exon_skip_223361 | 5.071788e-01 | 4.044579e-19 |
| HCC | HNRNPF | exon_skip_223361 | 6.201904e-01 | 3.387384e-30 |
| HCC | RBM4 | exon_skip_223361 | 4.245342e-01 | 2.775679e-13 |
| HCC | RBM4B | exon_skip_223361 | 5.183753e-01 | 4.870591e-20 |
| HCC | SRSF1 | exon_skip_214210 | -4.009134e-01 | 6.330759e-12 |
| HCC | RBFOX2 | exon_skip_236186 | -5.249521e-01 | 1.353836e-20 |
| HCC | MSI1 | exon_skip_236186 | 7.334337e-01 | 5.293687e-47 |
| HCC | RBM25 | exon_skip_236186 | 4.468369e-01 | 1.048332e-14 |
| HCC | ZNF326 | exon_skip_236186 | 6.106251e-01 | 4.400226e-29 |
| HCC | SFPQ | exon_skip_236186 | 5.697419e-01 | 1.007309e-24 |
| HCC | RBM6 | exon_skip_236186 | 6.484781e-01 | 1.001986e-33 |
| HCC | CNOT4 | exon_skip_236186 | 4.352202e-01 | 5.951564e-14 |
| HCC | RBM5 | exon_skip_236186 | 5.996901e-01 | 7.431103e-28 |
| HCC | IGF2BP2 | exon_skip_236186 | 4.153529e-01 | 9.986041e-13 |
| HCC | PCBP1 | exon_skip_236186 | 4.291801e-01 | 1.430586e-13 |
| HCC | PCBP2 | exon_skip_236186 | 4.014535e-01 | 6.449886e-12 |
| HCC | G3BP2 | exon_skip_236186 | -4.358614e-01 | 5.416910e-14 |
| HCC | RBM45 | exon_skip_236186 | 5.391540e-01 | 7.741332e-22 |
| HCC | EIF4G2 | exon_skip_236186 | 5.588718e-01 | 1.155733e-23 |
| HCC | SRSF1 | exon_skip_236186 | 4.267139e-01 | 2.036401e-13 |
| HCC | RBM41 | exon_skip_236186 | 5.058355e-01 | 5.186923e-19 |
| HCC | RBM4 | exon_skip_236186 | 5.019076e-01 | 1.066826e-18 |
| HCC | TARDBP | exon_skip_81014 | -4.151805e-01 | 8.432421e-13 |
| HCC | RBM6 | exon_skip_81014 | -6.700154e-01 | 6.188057e-37 |
| HCC | TRA2A | exon_skip_81014 | -4.018624e-01 | 5.107436e-12 |
| IFG | IGF2BP2 | exon_skip_88437 | -5.250147e-01 | 4.123031e-03 |
| IFG | ZNF638 | exon_skip_223361 | 5.080898e-01 | 5.772900e-03 |
| IFG | RBM6 | exon_skip_223361 | 5.826718e-01 | 1.139622e-03 |
| IFG | IGF2BP3 | exon_skip_223361 | 5.692308e-01 | 1.570495e-03 |
| IFG | IGF2BP2 | exon_skip_223361 | 4.484944e-01 | 1.667794e-02 |
| IFG | HNRNPH2 | exon_skip_223361 | -4.389918e-01 | 1.943530e-02 |
| IFG | RBFOX2 | exon_skip_236186 | -4.083814e-01 | 3.096675e-02 |
| IFG | RBM6 | exon_skip_236186 | 5.516299e-01 | 2.342871e-03 |
| IFG | IGF2BP3 | exon_skip_236186 | 5.570805e-01 | 2.074751e-03 |
| IFG | IGF2BP2 | exon_skip_236186 | 4.664115e-01 | 1.235526e-02 |
| IFG | G3BP2 | exon_skip_236186 | -4.672694e-01 | 1.217430e-02 |
| PCC | RBM6 | exon_skip_278310 | -4.790370e-01 | 2.490643e-13 |
| PCC | HNRNPF | exon_skip_123786 | 4.790777e-01 | 6.274780e-13 |
| PCC | RBFOX2 | exon_skip_236186 | -6.738849e-01 | 9.265043e-29 |
| PCC | MSI1 | exon_skip_236186 | 5.726943e-01 | 1.950593e-19 |
| PCC | ZNF326 | exon_skip_236186 | 4.518552e-01 | 8.253041e-12 |
| PCC | RBM6 | exon_skip_236186 | 4.716110e-01 | 7.352677e-13 |
| PCC | PCBP4 | exon_skip_236186 | 4.510809e-01 | 9.045185e-12 |
| PCC | G3BP2 | exon_skip_236186 | -7.033081e-01 | 3.274550e-32 |
| PCC | RBM6 | exon_skip_81014 | -4.714775e-01 | 3.942320e-13 |
| PG | NOVA1 | exon_skip_88437 | 5.322956e-01 | 1.240188e-14 |
| PG | TARDBP | exon_skip_223361 | -4.328332e-01 | 4.640558e-09 |
| PG | SRSF2 | exon_skip_223361 | -5.630785e-01 | 1.946021e-15 |
| PG | SFPQ | exon_skip_223361 | -4.769772e-01 | 6.303647e-11 |
| PG | ZNF638 | exon_skip_223361 | -4.358601e-01 | 3.522835e-09 |
| PG | SRSF11 | exon_skip_223361 | -5.241338e-01 | 3.071650e-13 |
| PG | CNOT4 | exon_skip_223361 | -4.192111e-01 | 1.551798e-08 |
| PG | FXR2 | exon_skip_223361 | -5.900629e-01 | 3.877366e-17 |
| PG | PCBP1 | exon_skip_223361 | -4.495919e-01 | 9.749493e-10 |
| PG | ILF2 | exon_skip_223361 | -6.307426e-01 | 5.056622e-20 |
| PG | HNRNPK | exon_skip_223361 | -6.067714e-01 | 2.841911e-18 |
| PG | PCBP2 | exon_skip_223361 | -4.038854e-01 | 5.668727e-08 |
| PG | RBM24 | exon_skip_223361 | -7.005294e-01 | 4.159544e-26 |
| PG | ENOX1 | exon_skip_223361 | -5.873107e-01 | 5.878267e-17 |
| PG | EIF4G2 | exon_skip_223361 | -5.520501e-01 | 8.724975e-15 |
| PG | HNRNPL | exon_skip_223361 | -6.186466e-01 | 4.032035e-19 |
| PG | CELF1 | exon_skip_223361 | -5.921226e-01 | 2.832460e-17 |
| PG | RBM23 | exon_skip_223361 | -5.086807e-01 | 1.925066e-12 |
| PG | SRSF1 | exon_skip_223361 | -5.341397e-01 | 8.898909e-14 |
| PG | SRSF9 | exon_skip_223361 | -4.872644e-01 | 2.113007e-11 |
| PG | HNRNPH2 | exon_skip_223361 | -6.623781e-01 | 1.403428e-22 |
| PG | RBM4 | exon_skip_223361 | -5.293855e-01 | 1.611318e-13 |
| PG | RBM4B | exon_skip_223361 | -4.058366e-01 | 4.824028e-08 |
| PG | SRSF1 | exon_skip_214210 | 4.604480e-01 | 3.828478e-10 |
| PG | SRSF2 | exon_skip_236186 | -4.829749e-01 | 5.809652e-10 |
| PG | RBFOX2 | exon_skip_236186 | -7.146775e-01 | 2.842476e-24 |
| PG | MSI1 | exon_skip_236186 | 6.396783e-01 | 2.756995e-18 |
| PG | RBM25 | exon_skip_236186 | -4.490588e-01 | 1.164300e-08 |
| PG | MBNL1 | exon_skip_236186 | -4.678992e-01 | 2.293067e-09 |
| PG | HNRNPK | exon_skip_236186 | -5.530149e-01 | 3.782530e-13 |
| PG | G3BP2 | exon_skip_236186 | -7.678050e-01 | 7.880415e-30 |
| PG | RBM24 | exon_skip_236186 | -6.902917e-01 | 3.977269e-22 |
| PG | ENOX1 | exon_skip_236186 | -5.417706e-01 | 1.379720e-12 |
| PG | RBM45 | exon_skip_236186 | -4.916224e-01 | 2.563492e-10 |
| PG | NUP42 | exon_skip_236186 | -4.955238e-01 | 1.758954e-10 |
| PG | EIF4G2 | exon_skip_236186 | -5.283638e-01 | 6.070216e-12 |
| PG | RBM23 | exon_skip_236186 | -5.037431e-01 | 7.831004e-11 |
| PG | SRSF1 | exon_skip_236186 | -4.729484e-01 | 1.458567e-09 |
| PG | SRSF9 | exon_skip_236186 | -5.088919e-01 | 4.665024e-11 |
| PG | NOVA1 | exon_skip_236186 | -6.121983e-01 | 1.741238e-16 |
| PG | RBM4 | exon_skip_236186 | -4.795252e-01 | 8.001216e-10 |
| PG | TARDBP | exon_skip_81014 | 4.596057e-01 | 3.719031e-09 |
| PG | SRSF2 | exon_skip_81014 | 5.675844e-01 | 4.423884e-14 |
| STG | IGF2BP2 | exon_skip_223361 | 4.036814e-01 | 1.402369e-04 |
| STG | RBM24 | exon_skip_223361 | -5.229698e-01 | 3.335396e-07 |
| STG | HNRNPH2 | exon_skip_223361 | -4.177932e-01 | 7.678659e-05 |
| STG | RBFOX2 | exon_skip_236186 | -4.708173e-01 | 4.452087e-05 |
| STG | G3BP2 | exon_skip_236186 | -5.229496e-01 | 4.029954e-06 |
| STG | NUP42 | exon_skip_236186 | -4.252877e-01 | 2.697469e-04 |
| STG | NOVA1 | exon_skip_236186 | -4.214452e-01 | 3.105114e-04 |
| TC | ESRP1 | exon_skip_88437 | 5.879483e-01 | 8.753489e-16 |
| TC | NOVA1 | exon_skip_88437 | 5.841665e-01 | 1.476375e-15 |
| TC | SRSF2 | exon_skip_123786 | -4.844849e-01 | 2.542787e-10 |
| TC | IGF2BP2 | exon_skip_123786 | 4.229645e-01 | 5.680067e-08 |
| TC | RBM24 | exon_skip_123786 | -5.017791e-01 | 4.535655e-11 |
| TC | HNRNPH2 | exon_skip_123786 | -4.977479e-01 | 6.837718e-11 |
| TC | ESRP1 | exon_skip_123786 | -4.780734e-01 | 4.703476e-10 |
| TC | HNRNPF | exon_skip_123786 | 4.298624e-01 | 3.262693e-08 |
| TC | SRSF2 | exon_skip_236186 | -4.483290e-01 | 4.916488e-09 |
| TC | RBFOX2 | exon_skip_236186 | -8.418823e-01 | 7.889210e-43 |
| TC | MSI1 | exon_skip_236186 | 4.719279e-01 | 5.689471e-10 |
| TC | RBM6 | exon_skip_236186 | 4.034477e-01 | 1.937901e-07 |
| TC | G3BP2 | exon_skip_236186 | -7.091594e-01 | 5.406136e-25 |
| TC | RBM24 | exon_skip_236186 | -7.623640e-01 | 1.019365e-30 |
| TC | RBM45 | exon_skip_236186 | -4.104132e-01 | 1.134168e-07 |
| TC | NUP42 | exon_skip_236186 | -6.672318e-01 | 2.556956e-21 |
| TC | FUS | exon_skip_236186 | -4.350651e-01 | 1.540321e-08 |
| TC | YBX2 | exon_skip_236186 | -4.970308e-01 | 4.757804e-11 |
| TC | ESRP1 | exon_skip_236186 | -6.139825e-01 | 1.976540e-17 |
| TC | NOVA1 | exon_skip_236186 | -6.780119e-01 | 3.318796e-22 |
| TC | SRSF2 | exon_skip_12214 | 4.029321e-01 | 1.530981e-07 |
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RelatedDrugs for PTPRF |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for PTPRF |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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