Gene Page: CDK3
Summary ?
| GeneID | 1018 |
| Symbol | CDK3 |
| Synonyms | - |
| Description | cyclin-dependent kinase 3 |
| Reference | MIM:123828|HGNC:HGNC:1772|Ensembl:ENSG00000250506|Ensembl:ENSG00000261408|HPRD:00446|Vega:OTTHUMG00000154861 |
| Gene type | protein-coding |
| Map location | 17q25.1 |
| Pascal p-value | 0.04 |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 Hippocampus Hypothalamus Nucleus accumbens basal ganglia Putamen basal ganglia |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 1 |
Section I. Genetics and epigenetics annotation
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs12945114 | 17 | 73993546 | CDK3 | ENSG00000250506.2 | 7.319E-8 | 0 | -3441 | gtex_brain_ba24 |
| rs3760131 | 17 | 73996887 | CDK3 | ENSG00000250506.2 | 7.324E-8 | 0 | -100 | gtex_brain_ba24 |
| rs2069528 | 17 | 73997474 | CDK3 | ENSG00000250506.2 | 7.319E-8 | 0 | 487 | gtex_brain_ba24 |
| rs2069536 | 17 | 74001106 | CDK3 | ENSG00000250506.2 | 7.305E-8 | 0 | 4119 | gtex_brain_ba24 |
| rs1135531 | 17 | 74002056 | CDK3 | ENSG00000250506.2 | 7.319E-8 | 0 | 5069 | gtex_brain_ba24 |
| rs11870342 | 17 | 74009047 | CDK3 | ENSG00000250506.2 | 5.603E-7 | 0 | 12060 | gtex_brain_ba24 |
| rs2665993 | 17 | 74009211 | CDK3 | ENSG00000250506.2 | 4.747E-8 | 0 | 12224 | gtex_brain_ba24 |
| rs2665971 | 17 | 74010038 | CDK3 | ENSG00000250506.2 | 2.452E-7 | 0 | 13051 | gtex_brain_ba24 |
| rs2598418 | 17 | 74012859 | CDK3 | ENSG00000250506.2 | 6.562E-8 | 0 | 15872 | gtex_brain_ba24 |
| rs2071194 | 17 | 74014468 | CDK3 | ENSG00000250506.2 | 2.723E-7 | 0 | 17481 | gtex_brain_ba24 |
| rs2071192 | 17 | 74014668 | CDK3 | ENSG00000250506.2 | 2.75E-7 | 0 | 17681 | gtex_brain_ba24 |
| rs2244377 | 17 | 74015354 | CDK3 | ENSG00000250506.2 | 4.665E-7 | 0 | 18367 | gtex_brain_ba24 |
| rs2244371 | 17 | 74015590 | CDK3 | ENSG00000250506.2 | 4.58E-7 | 0 | 18603 | gtex_brain_ba24 |
| rs2244370 | 17 | 74015595 | CDK3 | ENSG00000250506.2 | 4.959E-7 | 0 | 18608 | gtex_brain_ba24 |
| rs2665967 | 17 | 74016834 | CDK3 | ENSG00000250506.2 | 3.341E-7 | 0 | 19847 | gtex_brain_ba24 |
| rs2598417 | 17 | 74018655 | CDK3 | ENSG00000250506.2 | 6.387E-7 | 0 | 21668 | gtex_brain_ba24 |
| rs12945114 | 17 | 73993546 | CDK3 | ENSG00000250506.2 | 1.625E-7 | 0 | -3441 | gtex_brain_putamen_basal |
| rs3760131 | 17 | 73996887 | CDK3 | ENSG00000250506.2 | 1.578E-7 | 0 | -100 | gtex_brain_putamen_basal |
| rs2069528 | 17 | 73997474 | CDK3 | ENSG00000250506.2 | 1.625E-7 | 0 | 487 | gtex_brain_putamen_basal |
| rs2069536 | 17 | 74001106 | CDK3 | ENSG00000250506.2 | 1.668E-7 | 0 | 4119 | gtex_brain_putamen_basal |
| rs1135531 | 17 | 74002056 | CDK3 | ENSG00000250506.2 | 1.619E-7 | 0 | 5069 | gtex_brain_putamen_basal |
| rs2598418 | 17 | 74012859 | CDK3 | ENSG00000250506.2 | 2.159E-6 | 0 | 15872 | gtex_brain_putamen_basal |
| rs2598417 | 17 | 74018655 | CDK3 | ENSG00000250506.2 | 1.776E-6 | 0 | 21668 | gtex_brain_putamen_basal |
Section II. Transcriptome annotation
General gene expression (GTEx)
Gene expression of temporal and spatial changes (BrainSpan)
Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.
Top co-expressed genes in brain regions
| Top 10 positively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| ARG2 | 0.91 | 0.92 |
| C1orf149 | 0.91 | 0.92 |
| TARS | 0.90 | 0.91 |
| DR1 | 0.90 | 0.90 |
| SNX4 | 0.90 | 0.93 |
| STX7 | 0.90 | 0.92 |
| BFAR | 0.90 | 0.92 |
| ACTR3 | 0.89 | 0.93 |
| ARMCX1 | 0.89 | 0.92 |
| CCT6A | 0.89 | 0.93 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| MT-CO2 | -0.72 | -0.86 |
| FXYD1 | -0.71 | -0.87 |
| AF347015.33 | -0.71 | -0.86 |
| AF347015.31 | -0.71 | -0.85 |
| AF347015.27 | -0.70 | -0.85 |
| HLA-F | -0.70 | -0.80 |
| MT-CYB | -0.69 | -0.83 |
| AF347015.8 | -0.68 | -0.85 |
| TSC22D4 | -0.68 | -0.80 |
| S100B | -0.68 | -0.82 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0004693 | cyclin-dependent protein kinase activity | TAS | neuron (GO term level: 8) | 1639063 |
| GO:0000166 | nucleotide binding | IEA | - | |
| GO:0005515 | protein binding | IEA | - | |
| GO:0005524 | ATP binding | IEA | - | |
| GO:0016740 | transferase activity | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0006468 | protein amino acid phosphorylation | IEA | - | |
| GO:0007049 | cell cycle | IEA | - | |
| GO:0007067 | mitosis | IEA | - | |
| GO:0008283 | cell proliferation | TAS | 1639063 | |
| GO:0051301 | cell division | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005737 | cytoplasm | IDA | 18029348 | |
| GO:0043231 | intracellular membrane-bounded organelle | IDA | 18029348 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| PYEON HPV POSITIVE TUMORS UP | 98 | 47 | All SZGR 2.0 genes in this pathway |
| WANG CLIM2 TARGETS UP | 269 | 146 | All SZGR 2.0 genes in this pathway |
| GINESTIER BREAST CANCER ZNF217 AMPLIFIED DN | 335 | 193 | All SZGR 2.0 genes in this pathway |
| BUSA SAM68 TARGETS DN | 6 | 5 | All SZGR 2.0 genes in this pathway |
| NIKOLSKY BREAST CANCER 17Q21 Q25 AMPLICON | 335 | 181 | All SZGR 2.0 genes in this pathway |
| BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING | 510 | 309 | All SZGR 2.0 genes in this pathway |
| FIRESTEIN PROLIFERATION | 175 | 125 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN IPS LCP WITH H3K4ME3 | 174 | 100 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES LCP WITH H3K4ME3 | 142 | 80 | All SZGR 2.0 genes in this pathway |