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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 PRKD2 |
 Gene summary |
| Gene information | Gene symbol | PRKD2 | Gene ID | 25865 |
| Gene name | protein kinase D2 | |
| Synonyms | HSPC187|PKD2|nPKC-D2 | |
| Cytomap | 19q13.32 | |
| Type of gene | protein-coding | |
| Description | serine/threonine-protein kinase D2 | |
| 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 |
| PRKD2 | GO:0006468 | protein phosphorylation | 22228765 |
| PRKD2 | GO:0018105 | peptidyl-serine phosphorylation | 18440775 |
| PRKD2 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 17077180 |
| PRKD2 | GO:0046777 | protein autophosphorylation | 17077180 |
| PRKD2 | GO:0050852 | T cell receptor signaling pathway | 17077180 |
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Gene structures and expression levels for PRKD2 |
| 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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ENSG00000105287
| 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 | ENST00000291281.8 | PRKD2-201:protein_coding:PRKD2 | 1.907686e+01 | 1.494065e+00 | 1.405606e-04 | 3.526166e-03 |
| CB | DOWN | ENST00000602155.5 | PRKD2-217:retained_intron:PRKD2 | 2.217501e+01 | -8.970672e-01 | 2.809276e-03 | 1.222066e-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 PRKD2 |
| 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_110416 | chr19 | 46675033:46675118:46678396:46678663:46681650:46681748 | 46678396:46678663 |
| exon_skip_181019 | chr19 | 46700799:46700952:46701035:46701112:46704169:46704391 | 46701035:46701112 |
| exon_skip_187606 | chr19 | 46710907:46711038:46713863:46714001:46716131:46716244 | 46713863:46714001 |
| exon_skip_260419 | chr19 | 46681683:46681748:46685425:46685521:46689537:46689698 | 46685425:46685521 |
| exon_skip_281714 | chr19 | 46710907:46711038:46713863:46714001:46716131:46716220 | 46713863:46714001 |
| exon_skip_287895 | chr19 | 46690600:46690706:46691735:46691807:46691933:46691985 | 46691735:46691807 |
| exon_skip_68938 | chr19 | 46675033:46675118:46678366:46678663:46681650:46681748 | 46678366:46678663 |
| 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 PRKD2 |
| 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 |
| ENST00000291281 | 46678396 | 46678663 | Frame-shift |
| ENST00000433867 | 46678396 | 46678663 | Frame-shift |
| ENST00000291281 | 46691735 | 46691807 | Frame-shift |
| ENST00000433867 | 46691735 | 46691807 | Frame-shift |
| ENST00000291281 | 46713863 | 46714001 | Frame-shift |
| ENST00000433867 | 46713863 | 46714001 | Frame-shift |
| ENST00000291281 | 46701035 | 46701112 | In-frame |
| ENST00000433867 | 46701035 | 46701112 | 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 |
| 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 |
| ENST00000291281 | 46678396 | 46678663 | Frame-shift |
| ENST00000433867 | 46678396 | 46678663 | Frame-shift |
| ENST00000291281 | 46713863 | 46714001 | Frame-shift |
| ENST00000433867 | 46713863 | 46714001 | Frame-shift |
| ENST00000291281 | 46701035 | 46701112 | In-frame |
| ENST00000433867 | 46701035 | 46701112 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PRKD2 |
p-ENSG00000105287_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 |
| ENST00000291281 | 3087 | 878 | 46701035 | 46701112 | 1116 | 1192 | 296 | 322 |
| ENST00000433867 | 3338 | 878 | 46701035 | 46701112 | 1368 | 1444 | 296 | 322 |
| 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 |
| ENST00000291281 | 3087 | 878 | 46701035 | 46701112 | 1116 | 1192 | 296 | 322 |
| ENST00000433867 | 3338 | 878 | 46701035 | 46701112 | 1368 | 1444 | 296 | 322 |
| 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 |
| Q9BZL6 | 296 | 322 | 1 | 878 | Chain | ID=PRO_0000055716;Note=Serine/threonine-protein kinase D2 |
| Q9BZL6 | 296 | 322 | 1 | 878 | Chain | ID=PRO_0000055716;Note=Serine/threonine-protein kinase D2 |
| Q9BZL6 | 296 | 322 | 264 | 314 | Zinc finger | Note=Phorbol-ester/DAG-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00226 |
| Q9BZL6 | 296 | 322 | 264 | 314 | Zinc finger | Note=Phorbol-ester/DAG-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00226 |
| 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 |
| Q9BZL6 | 296 | 322 | 1 | 878 | Chain | ID=PRO_0000055716;Note=Serine/threonine-protein kinase D2 |
| Q9BZL6 | 296 | 322 | 1 | 878 | Chain | ID=PRO_0000055716;Note=Serine/threonine-protein kinase D2 |
| Q9BZL6 | 296 | 322 | 264 | 314 | Zinc finger | Note=Phorbol-ester/DAG-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00226 |
| Q9BZL6 | 296 | 322 | 264 | 314 | Zinc finger | Note=Phorbol-ester/DAG-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00226 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PRKD2 |
| 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 PRKD2 |
| - 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 PRKD2 |
| 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 PRKD2 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| TC | exon_skip_260419 | rs3027957 | chr19:46784250 | 8.108568e-05 | 1.382573e-02 |
| HCC | exon_skip_260419 | rs4802322 | chr19:46739735 | 2.128234e-04 | 1.703576e-02 |
| HCC | exon_skip_260419 | rs11668987 | chr19:46724564 | 2.863386e-04 | 2.171122e-02 |
| HCC | exon_skip_260419 | rs314661 | chr19:46669216 | 8.107892e-04 | 4.954529e-02 |
| PCC | exon_skip_260419 | rs4802322 | chr19:46739735 | 5.752246e-09 | 3.538823e-06 |
| PCC | exon_skip_260419 | rs11668987 | chr19:46724564 | 2.741828e-07 | 1.132007e-04 |
| PCC | exon_skip_260419 | rs3027957 | chr19:46784250 | 3.233930e-06 | 9.618407e-04 |
| DLPFC | exon_skip_260419 | rs11668987 | chr19:46724564 | 1.009160e-07 | 1.885606e-05 |
| DLPFC | exon_skip_260419 | rs4802322 | chr19:46739735 | 1.337431e-07 | 2.417840e-05 |
| DLPFC | exon_skip_260419 | rs2871987 | chr19:46672271 | 2.524588e-05 | 2.546587e-03 |
| DLPFC | exon_skip_260419 | rs314661 | chr19:46669216 | 5.267532e-05 | 4.850631e-03 |
| DLPFC | exon_skip_260419 | rs3027957 | chr19:46784250 | 5.560314e-05 | 5.075473e-03 |
| DLPFC | exon_skip_260419 | rs12461093 | chr19:46682662 | 7.197512e-05 | 6.364712e-03 |
| DLPFC | exon_skip_260419 | rs314662 | chr19:46667387 | 1.789315e-04 | 1.394815e-02 |
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Correlation with RNA binding proteins (RBPs) for PRKD2 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for PRKD2 |
| 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 PRKD2 |
| 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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