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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for PTPRJ |
 Gene summary |
| Gene information | Gene symbol | PTPRJ | Gene ID | 5795 |
| Gene name | protein tyrosine phosphatase, receptor type J | |
| Synonyms | CD148|DEP1|HPTPeta|R-PTP-ETA|SCC1 | |
| Cytomap | 11p11.2 | |
| Type of gene | protein-coding | |
| Description | receptor-type tyrosine-protein phosphatase etaCD148 antigenDEP-1HPTP etaR-PTP-Jdensity-enhanced phosphatase 1human density enhanced phosphatase-1protein tyrosine phosphatase, receptor type, J polypeptideprotein-tyrosine phosphatase etasusceptibil | |
| Modification date | 20180522 | |
| UniProtAcc | Q12913 | |
| Context | PubMed: PTPRJ [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| PTPRJ | GO:0008285 | negative regulation of cell proliferation | 14709717|16682945|16778204 |
| PTPRJ | GO:0010642 | negative regulation of platelet-derived growth factor receptor signaling pathway | 14709717 |
| PTPRJ | GO:0030308 | negative regulation of cell growth | 14709717 |
| PTPRJ | GO:0030336 | negative regulation of cell migration | 16682945 |
| PTPRJ | GO:0035335 | peptidyl-tyrosine dephosphorylation | 9531590|10821867|12913111|16778204|18348712|18936167|19332538 |
| PTPRJ | GO:0043116 | negative regulation of vascular permeability | 19332538 |
| PTPRJ | GO:0043407 | negative regulation of MAP kinase activity | 19494114 |
| PTPRJ | GO:0050860 | negative regulation of T cell receptor signaling pathway | 12913111 |
| PTPRJ | GO:0050918 | positive chemotaxis | 14709717 |
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Exon skipping events across known transcript of Ensembl for PTPRJ from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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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Gene isoform structures and expression levels for PTPRJ |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for PTPRJ |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_59310 | 11 | 48066355:48066423:48067781:48067883:48131609:48131628 | 48067781:48067883 | ENSG00000149177.8 | ENST00000526550.1 |
| exon_skip_59312 | 11 | 48131609:48131628:48134298:48134535:48142554:48142651 | 48134298:48134535 | ENSG00000149177.8 | ENST00000440289.2,ENST00000526550.1,ENST00000418331.2 |
| exon_skip_59315 | 11 | 48134343:48134535:48142554:48142818:48145164:48145252 | 48142554:48142818 | ENSG00000149177.8 | ENST00000440289.2,ENST00000418331.2 |
| exon_skip_59317 | 11 | 48166226:48166437:48166551:48166676:48168427:48168515 | 48166551:48166676 | ENSG00000149177.8 | ENST00000418331.2 |
| exon_skip_59320 | 11 | 48166629:48166676:48168427:48168515:48170998:48171040 | 48168427:48168515 | ENSG00000149177.8 | ENST00000527026.1,ENST00000418331.2 |
| exon_skip_59322 | 11 | 48170998:48171040:48171541:48171550:48171647:48171735 | 48171541:48171550 | ENSG00000149177.8 | ENST00000418331.2 |
| exon_skip_59323 | 11 | 48185009:48185170:48185931:48186067:48188755:48189670 | 48185931:48186067 | ENSG00000149177.8 | ENST00000418331.2 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for PTPRJ |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_59310 | 11 | 48066355:48066423:48067781:48067883:48131609:48131628 | 48067781:48067883 | ENSG00000149177.8 | ENST00000526550.1 |
| exon_skip_59312 | 11 | 48131609:48131628:48134298:48134535:48142554:48142651 | 48134298:48134535 | ENSG00000149177.8 | ENST00000418331.2,ENST00000440289.2,ENST00000526550.1 |
| exon_skip_59315 | 11 | 48134343:48134535:48142554:48142818:48145164:48145252 | 48142554:48142818 | ENSG00000149177.8 | ENST00000418331.2,ENST00000440289.2 |
| exon_skip_59317 | 11 | 48166226:48166437:48166551:48166676:48168427:48168515 | 48166551:48166676 | ENSG00000149177.8 | ENST00000418331.2 |
| exon_skip_59320 | 11 | 48166629:48166676:48168427:48168515:48170998:48171040 | 48168427:48168515 | ENSG00000149177.8 | ENST00000418331.2,ENST00000527026.1 |
| exon_skip_59322 | 11 | 48170998:48171040:48171541:48171550:48171647:48171735 | 48171541:48171550 | ENSG00000149177.8 | ENST00000418331.2 |
| exon_skip_59323 | 11 | 48185009:48185170:48185931:48186067:48188755:48189670 | 48185931:48186067 | ENSG00000149177.8 | ENST00000418331.2 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for PTPRJ |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000418331 | 48166551 | 48166676 | Frame-shift |
| ENST00000418331 | 48168427 | 48168515 | Frame-shift |
| ENST00000418331 | 48185931 | 48186067 | Frame-shift |
| ENST00000418331 | 48134298 | 48134535 | In-frame |
| ENST00000418331 | 48142554 | 48142818 | In-frame |
| ENST00000418331 | 48171541 | 48171550 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000418331 | 48166551 | 48166676 | Frame-shift |
| ENST00000418331 | 48168427 | 48168515 | Frame-shift |
| ENST00000418331 | 48185931 | 48186067 | Frame-shift |
| ENST00000418331 | 48134298 | 48134535 | In-frame |
| ENST00000418331 | 48142554 | 48142818 | In-frame |
| ENST00000418331 | 48171541 | 48171550 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PTPRJ |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA 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 |
| ENST00000418331 | 5139 | 1337 | 48134298 | 48134535 | 468 | 704 | 38 | 117 |
| ENST00000418331 | 5139 | 1337 | 48142554 | 48142818 | 705 | 968 | 117 | 205 |
| Loci of skipped exons in GTEx 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 |
| ENST00000418331 | 5139 | 1337 | 48134298 | 48134535 | 468 | 704 | 38 | 117 |
| ENST00000418331 | 5139 | 1337 | 48142554 | 48142818 | 705 | 968 | 117 | 205 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| 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 |
| Q12913 | 38 | 117 | 36 | 1337 | Chain | ID=PRO_0000025444;Note=Receptor-type tyrosine-protein phosphatase eta |
| Q12913 | 38 | 117 | 72 | 72 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 82 | 82 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 93 | 93 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 104 | 104 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 36 | 975 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 36 | 1337 | Chain | ID=PRO_0000025444;Note=Receptor-type tyrosine-protein phosphatase eta |
| Q12913 | 117 | 205 | 121 | 209 | Domain | Note=Fibronectin type-III 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| Q12913 | 117 | 205 | 142 | 142 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 172 | 172 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 192 | 192 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 36 | 975 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Lost protein functional features of individual exon skipping events in GTEx. |
| 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 |
| Q12913 | 38 | 117 | 36 | 1337 | Chain | ID=PRO_0000025444;Note=Receptor-type tyrosine-protein phosphatase eta |
| Q12913 | 38 | 117 | 72 | 72 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 82 | 82 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 93 | 93 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 104 | 104 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 38 | 117 | 36 | 975 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 36 | 1337 | Chain | ID=PRO_0000025444;Note=Receptor-type tyrosine-protein phosphatase eta |
| Q12913 | 117 | 205 | 121 | 209 | Domain | Note=Fibronectin type-III 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00316 |
| Q12913 | 117 | 205 | 142 | 142 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 172 | 172 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 192 | 192 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q12913 | 117 | 205 | 36 | 975 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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SNVs in the skipped exons for PTPRJ |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_59312 | 48134299 | 48134535 | 48134347 | 48134347 | Frame_Shift_Del | A | - | p.E55fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_59312 | 48134299 | 48134535 | 48134441 | 48134441 | Frame_Shift_Del | T | - | p.D86fs |
| LUAD | TCGA-95-7567-01 | exon_skip_59312 | 48134299 | 48134535 | 48134531 | 48134532 | Frame_Shift_Del | CA | - | p.S116fs |
| LIHC | TCGA-G3-A3CJ-01 | exon_skip_59323 | 48185932 | 48186067 | 48186049 | 48186049 | Frame_Shift_Del | T | - | p.P1279fs |
| LUAD | TCGA-55-8205-01 | exon_skip_59315 | 48142555 | 48142818 | 48142704 | 48142704 | Nonsense_Mutation | C | T | p.Q168* |
| HNSC | TCGA-CV-7414-01 | exon_skip_59317 | 48166552 | 48166676 | 48166647 | 48166647 | Nonsense_Mutation | C | G | p.S961* |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| LN405_CENTRAL_NERVOUS_SYSTEM | 48134299 | 48134535 | 48134329 | 48134329 | Missense_Mutation | C | A | p.A49E |
| NCIH1436_LUNG | 48134299 | 48134535 | 48134359 | 48134359 | Missense_Mutation | C | G | p.T59R |
| JHUEM7_ENDOMETRIUM | 48134299 | 48134535 | 48134403 | 48134403 | Missense_Mutation | A | C | p.T74P |
| CAL39_VULVA | 48142555 | 48142818 | 48142571 | 48142571 | Missense_Mutation | T | G | p.F123L |
| NBTU110_AUTONOMIC_GANGLIA | 48168428 | 48168515 | 48168457 | 48168457 | Missense_Mutation | A | G | p.I981V |
| NALM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 48185932 | 48186067 | 48185973 | 48185973 | Missense_Mutation | G | A | p.R1254H |
| CW2_LARGE_INTESTINE | 48185932 | 48186067 | 48186020 | 48186020 | Missense_Mutation | A | T | p.I1270F |
| SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 48185932 | 48186067 | 48186026 | 48186026 | Missense_Mutation | T | C | p.Y1272H |
| IPC298_SKIN | 48134299 | 48134535 | 48134394 | 48134394 | Nonsense_Mutation | C | T | p.Q71* |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PTPRJ |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for PTPRJ |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for PTPRJ |
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RelatedDrugs for PTPRJ |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for PTPRJ |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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