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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 PTPRK |
 Gene summary |
| Gene information | Gene symbol | PTPRK | Gene ID | 5796 |
| Gene name | protein tyrosine phosphatase receptor type K | |
| Synonyms | R-PTP-kappa | |
| Cytomap | 6q22.33 | |
| Type of gene | protein-coding | |
| Description | receptor-type tyrosine-protein phosphatase kappadJ480J14.2.1 (protein tyrosine phosphatase, receptor type, K (R-PTP-KAPPA, protein tyrosine phosphatase kappa , protein tyrosine phosphatase kappaprotein-tyrosine phosphatase kappaprotein-tyrosine phospha | |
| Modification date | 20200322 | |
| 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 |
| PTPRK | GO:0006470 | protein dephosphorylation | 16263724 |
| PTPRK | GO:0007165 | signal transduction | 16849327 |
| PTPRK | GO:0007179 | transforming growth factor beta receptor signaling pathway | 15899872 |
| PTPRK | GO:0008285 | negative regulation of cell proliferation | 15899872|18276111 |
| PTPRK | GO:0010839 | negative regulation of keratinocyte proliferation | 16263724 |
| PTPRK | GO:0030336 | negative regulation of cell migration | 18276111 |
| PTPRK | GO:0034394 | protein localization to cell surface | 18276111 |
| PTPRK | GO:0034614 | cellular response to reactive oxygen species | 16849327 |
| PTPRK | GO:0034644 | cellular response to UV | 16849327 |
| PTPRK | GO:0045786 | negative regulation of cell cycle | 15899872 |
| PTPRK | GO:0045892 | negative regulation of transcription, DNA-templated | 18276111 |
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Gene structures and expression levels for PTPRK |
| 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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ENSG00000152894
| 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. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| CB | DOWN | ENST00000434424.5 | PTPRK-212:lncRNA:PTPRK | 1.451218e+00 | -1.067156e+00 | 2.465427e-04 | 1.589405e-03 |
| CB | DOWN | ENST00000531050.5 | PTPRK-219:nonsense_mediated_decay:PTPRK | 6.555499e+00 | -9.733734e-01 | 2.048432e-03 | 9.400103e-03 |
| 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 PTPRK |
| 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_108082 | chr6 | 128005130:128005244:128006026:128006055:128009130:128009172 | 128006026:128006055 |
| exon_skip_143970 | chr6 | 128397566:128397688:128409294:128409332:128520259:128520358 | 128409294:128409332 |
| exon_skip_153056 | chr6 | 127998720:127998904:128003197:128003232:128005084:128005138 | 128003197:128003232 |
| exon_skip_155927 | chr6 | 128397566:128397688:128491732:128491849:128520259:128520358 | 128491732:128491849 |
| exon_skip_166051 | chr6 | 128005084:128005244:128006026:128006055:128009130:128009172 | 128006026:128006055 |
| exon_skip_176510 | chr6 | 127998720:127998904:128001196:128001207:128003197:128003232 | 128001196:128001207 |
| exon_skip_202600 | chr6 | 128006026:128006055:128008046:128008087:128009130:128009172 | 128008046:128008087 |
| exon_skip_224641 | chr6 | 128001196:128001207:128003197:128003232:128005084:128005244 | 128003197:128003232 |
| exon_skip_229973 | chr6 | 128242521:128242602:128322039:128322310:128397566:128397617 | 128322039:128322310 |
| exon_skip_230777 | chr6 | 127998720:127998904:128003197:128003232:128005084:128005244 | 128003197:128003232 |
| exon_skip_27229 | chr6 | 127992673:127992709:127995249:127995266:127995462:127995538 | 127995249:127995266 |
| exon_skip_274245 | chr6 | 128005084:128005244:128006026:128006055:128008046:128008077 | 128006026:128006055 |
| exon_skip_275025 | chr6 | 128397566:128397688:128409294:128409332:128520259:128520599 | 128409294:128409332 |
| exon_skip_276661 | chr6 | 128005163:128005244:128006026:128006055:128009130:128009172 | 128006026:128006055 |
| exon_skip_69828 | chr6 | 128322251:128322310:128397566:128397688:128520259:128520358 | 128397566:128397688 |
| exon_skip_90884 | chr6 | 127999987:128000330:128001196:128001207:128003197:128003232 | 128001196:128001207 |
| 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_27229 | ROSMAP_PCC | 5.996000e-01 | 7.098795e-01 | -1.102795e-01 | 3.029891e-04 |
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Open reading frame (ORF) annotation in the exon skipping event for PTPRK |
| 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 |
| 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 |
| 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 |
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Infer the effects of exon skipping event on protein functional features for PTPRK |
p-ENSG00000152894_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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PTPRK |
| 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 PTPRK |
| - 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 PTPRK |
| 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_166051 | -5.209845e-01 | 4.474007e-03 | chr6 | - | 128005084 | 128005244 | 128006026 | 128006055 | 128009130 | 128009172 |
| CDR | MSBB | IFG | exon_skip_166051 | -5.249629e-01 | 4.127391e-03 | chr6 | - | 128005084 | 128005244 | 128006026 | 128006055 | 128009130 | 128009172 |
| CDR | MSBB | IFG | exon_skip_143970 | -4.065560e-01 | 3.179931e-02 | chr6 | - | 128397566 | 128397688 | 128409294 | 128409332 | 128520259 | 128520358 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PTPRK |
| 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 PTPRK |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| FL | ELAVL4 | exon_skip_166051 | 4.684486e-01 | 1.369526e-11 |
| IFG | NOVA1 | exon_skip_14006 | 4.724917e-01 | 2.280625e-02 |
| IFG | RBM24 | exon_skip_230777 | 5.295025e-01 | 9.367128e-03 |
| IFG | ELAVL4 | exon_skip_166051 | 4.413325e-01 | 1.872358e-02 |
| PCC | MSI1 | exon_skip_230777 | -4.049746e-01 | 2.058607e-09 |
| PCC | RBM6 | exon_skip_230777 | -4.418206e-01 | 4.144608e-11 |
| PCC | MSI1 | exon_skip_166051 | -4.287548e-01 | 8.444654e-11 |
| PCC | ELAVL4 | exon_skip_166051 | 4.857367e-01 | 7.848226e-14 |
| PG | RALYL | exon_skip_27229 | 4.139586e-01 | 2.436980e-08 |
| PG | HNRNPH2 | exon_skip_27229 | 4.283817e-01 | 6.925539e-09 |
| PG | ELAVL4 | exon_skip_166051 | 4.581516e-01 | 2.061177e-10 |
| STG | ELAVL4 | exon_skip_166051 | 4.581648e-01 | 1.924250e-05 |
| STG | HNRNPA0 | exon_skip_166051 | 4.085525e-01 | 1.683745e-04 |
| TC | HNRNPDL | exon_skip_27229 | 5.954707e-01 | 1.436170e-15 |
| TC | RALYL | exon_skip_27229 | 4.922931e-01 | 2.085276e-10 |
| TC | EWSR1 | exon_skip_27229 | 4.970479e-01 | 1.311421e-10 |
| TC | HNRNPH2 | exon_skip_27229 | 5.854709e-01 | 5.484422e-15 |
| TC | ELAVL4 | exon_skip_108082 | 6.844863e-01 | 1.284427e-22 |
| TC | HNRNPA0 | exon_skip_108082 | 5.555879e-01 | 7.501687e-14 |
| TC | ESRP1 | exon_skip_108082 | 5.471255e-01 | 2.109137e-13 |
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RelatedDrugs for PTPRK |
| 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 PTPRK |
| 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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