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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 PRKD3 |
 Gene summary |
| Gene information | Gene symbol | PRKD3 | Gene ID | 23683 |
| Gene name | protein kinase D3 | |
| Synonyms | EPK2|PKC-NU|PKD3|PRKCN|nPKC-NU | |
| Cytomap | 2p22.2 | |
| Type of gene | protein-coding | |
| Description | serine/threonine-protein kinase D3protein kinase C nu typeprotein kinase EPK2 | |
| Modification date | 20200329 | |
| 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 |
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Gene structures and expression levels for PRKD3 |
| 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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ENSG00000115825
| 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 |
| PG | UP | ENST00000477132.1 | PRKD3-209:lncRNA:PRKD3 | 4.129237e+00 | 1.247557e+00 | 2.726107e-04 | 5.722429e-03 |
| TC | UP | ENST00000379066.5 | PRKD3-202:protein_coding:PRKD3 | 2.068712e+02 | 8.793980e-01 | 1.228012e-04 | 1.905260e-03 |
| TC | UP | ENST00000443187.1 | PRKD3-203:protein_coding:PRKD3 | 4.260377e+00 | 8.253014e-01 | 9.320730e-04 | 9.365419e-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 PRKD3 |
| 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_121024 | chr2 | 37256698:37256929:37259583:37259681:37260223:37260384 | 37259583:37259681 |
| exon_skip_127790 | chr2 | 37250502:37253350:37254204:37254289:37256662:37256929 | 37254204:37254289 |
| exon_skip_148398 | chr2 | 37260356:37260384:37267430:37267536:37269615:37269687 | 37267430:37267536 |
| exon_skip_191629 | chr2 | 37267430:37267536:37268301:37268372:37269615:37269687 | 37268301:37268372 |
| exon_skip_24022 | chr2 | 37286232:37286369:37289356:37289513:37290868:37290962 | 37289356:37289513 |
| exon_skip_259434 | chr2 | 37259583:37259681:37260223:37260384:37267430:37267536 | 37260223:37260384 |
| exon_skip_3674 | chr2 | 37275767:37275844:37277866:37277989:37279746:37279929 | 37277866:37277989 |
| exon_skip_93362 | chr2 | 37277866:37277989:37279746:37279929:37282542:37282619 | 37279746:37279929 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for PRKD3 |
| 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 |
| ENST00000234179 | 37277866 | 37277989 | Frame-shift |
| ENST00000379066 | 37277866 | 37277989 | Frame-shift |
| ENST00000234179 | 37279746 | 37279929 | Frame-shift |
| ENST00000379066 | 37279746 | 37279929 | Frame-shift |
| ENST00000234179 | 37289356 | 37289513 | Frame-shift |
| ENST00000379066 | 37289356 | 37289513 | Frame-shift |
| ENST00000234179 | 37259583 | 37259681 | In-frame |
| ENST00000379066 | 37259583 | 37259681 | In-frame |
| ENST00000234179 | 37260223 | 37260384 | In-frame |
| ENST00000379066 | 37260223 | 37260384 | 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 |
| ENST00000234179 | 37254204 | 37254289 | Frame-shift |
| ENST00000379066 | 37254204 | 37254289 | Frame-shift |
| ENST00000234179 | 37277866 | 37277989 | Frame-shift |
| ENST00000379066 | 37277866 | 37277989 | Frame-shift |
| ENST00000234179 | 37289356 | 37289513 | Frame-shift |
| ENST00000379066 | 37289356 | 37289513 | Frame-shift |
| 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 |
| ENST00000234179 | 37267430 | 37267536 | Frame-shift |
| ENST00000379066 | 37267430 | 37267536 | Frame-shift |
| ENST00000234179 | 37277866 | 37277989 | Frame-shift |
| ENST00000379066 | 37277866 | 37277989 | Frame-shift |
| ENST00000234179 | 37279746 | 37279929 | Frame-shift |
| ENST00000379066 | 37279746 | 37279929 | Frame-shift |
| ENST00000234179 | 37289356 | 37289513 | Frame-shift |
| ENST00000379066 | 37289356 | 37289513 | Frame-shift |
| ENST00000234179 | 37259583 | 37259681 | In-frame |
| ENST00000379066 | 37259583 | 37259681 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PRKD3 |
p-ENSG00000115825_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 |
| ENST00000234179 | 5917 | 890 | 37260223 | 37260384 | 2440 | 2600 | 628 | 681 |
| ENST00000379066 | 6128 | 890 | 37260223 | 37260384 | 2648 | 2808 | 628 | 681 |
| ENST00000234179 | 5917 | 890 | 37259583 | 37259681 | 2602 | 2699 | 682 | 714 |
| ENST00000379066 | 6128 | 890 | 37259583 | 37259681 | 2810 | 2907 | 682 | 714 |
| 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 |
| ENST00000234179 | 5917 | 890 | 37259583 | 37259681 | 2602 | 2699 | 682 | 714 |
| ENST00000379066 | 6128 | 890 | 37259583 | 37259681 | 2810 | 2907 | 682 | 714 |
| 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 |
| O94806 | 628 | 681 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 628 | 681 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 628 | 681 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 628 | 681 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 628 | 681 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
| O94806 | 628 | 681 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
| O94806 | 682 | 714 | 699 | 699 | Active site | Note=Proton acceptor;Ontology_term=ECO:0000255,ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159,ECO:0000255|PROSITE-ProRule:PRU10027 |
| O94806 | 682 | 714 | 699 | 699 | Active site | Note=Proton acceptor;Ontology_term=ECO:0000255,ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159,ECO:0000255|PROSITE-ProRule:PRU10027 |
| O94806 | 682 | 714 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 682 | 714 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 682 | 714 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 682 | 714 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 682 | 714 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
| O94806 | 682 | 714 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
| 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 |
| O94806 | 682 | 714 | 699 | 699 | Active site | Note=Proton acceptor;Ontology_term=ECO:0000255,ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159,ECO:0000255|PROSITE-ProRule:PRU10027 |
| O94806 | 682 | 714 | 699 | 699 | Active site | Note=Proton acceptor;Ontology_term=ECO:0000255,ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159,ECO:0000255|PROSITE-ProRule:PRU10027 |
| O94806 | 682 | 714 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 682 | 714 | 612 | 890 | Alternative sequence | ID=VSP_029406;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| O94806 | 682 | 714 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 682 | 714 | 1 | 890 | Chain | ID=PRO_0000055717;Note=Serine/threonine-protein kinase D3 |
| O94806 | 682 | 714 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
| O94806 | 682 | 714 | 576 | 832 | Domain | Note=Protein kinase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00159 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PRKD3 |
| 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 PRKD3 |
| - 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 PRKD3 |
| 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 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PRKD3 |
| 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 PRKD3 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for PRKD3 |
| 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 PRKD3 |
| 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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