Gene Page: GRIK4
Summary ?
| GeneID | 2900 |
| Symbol | GRIK4 |
| Synonyms | EAA1|GRIK|GluK4|KA1 |
| Description | glutamate ionotropic receptor kainate type subunit 4 |
| Reference | MIM:600282|HGNC:HGNC:4582|Ensembl:ENSG00000149403|HPRD:02613|Vega:OTTHUMG00000048255 |
| Gene type | protein-coding |
| Map location | 11q22.3 |
| Pascal p-value | 0.24 |
| Fetal beta | -0.79 |
| Support | LIGAND GATED ION SIGNALING Potential synaptic genes |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
| Association | A combined odds ratio method (Sun et al. 2008), association studies | 1 | Link to SZGene |
| GSMA_I | Genome scan meta-analysis | Psr: 0.006 | |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias | Click to show details |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 7 | |
| Network | Shortest path distance of core genes in the Human protein-protein interaction network | Contribution to shortest path in PPI network: 31 |
Section I. Genetics and epigenetics annotation
Section II. Transcriptome annotation
General gene expression (GTEx)
Gene expression during devlopment (BrainCloud)
Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.
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 |
| PCDHA13 | 0.87 | 0.88 |
| MYO16 | 0.86 | 0.86 |
| PCDHAC1 | 0.84 | 0.83 |
| PCDHA1 | 0.83 | 0.85 |
| CXXC4 | 0.80 | 0.85 |
| GNAZ | 0.79 | 0.84 |
| CHN2 | 0.79 | 0.87 |
| AC079061.1 | 0.79 | 0.88 |
| HMGCS1 | 0.78 | 0.82 |
| C12orf68 | 0.78 | 0.80 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| MT-CO2 | -0.56 | -0.62 |
| AF347015.31 | -0.56 | -0.60 |
| AF347015.33 | -0.56 | -0.58 |
| AC021016.1 | -0.55 | -0.61 |
| FXYD1 | -0.55 | -0.55 |
| AF347015.27 | -0.55 | -0.57 |
| AF347015.8 | -0.54 | -0.61 |
| AF347015.2 | -0.54 | -0.61 |
| MT-CYB | -0.54 | -0.58 |
| S100B | -0.53 | -0.54 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005234 | extracellular-glutamate-gated ion channel activity | IEA | glutamate (GO term level: 11) | - |
| GO:0015277 | kainate selective glutamate receptor activity | TAS | glutamate (GO term level: 8) | 8263508 |
| GO:0004872 | receptor activity | IEA | - | |
| GO:0005515 | protein binding | IEA | - | |
| GO:0005216 | ion channel activity | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0007268 | synaptic transmission | TAS | neuron, Synap, Neurotransmitter (GO term level: 6) | 8263508 |
| GO:0007215 | glutamate signaling pathway | TAS | glutamate (GO term level: 7) | 8263508 |
| GO:0006811 | ion transport | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0042734 | presynaptic membrane | IEA | neuron, axon, Synap (GO term level: 5) | - |
| GO:0032983 | kainate selective glutamate receptor complex | IEA | glutamate (GO term level: 10) | - |
| GO:0045211 | postsynaptic membrane | IEA | Synap, Neurotransmitter (GO term level: 5) | - |
| GO:0045202 | synapse | IEA | neuron, Synap, Neurotransmitter, Glial (GO term level: 2) | - |
| GO:0005624 | membrane fraction | IEA | - | |
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0005887 | integral to plasma membrane | TAS | 8263508 | |
| GO:0030054 | cell junction | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION | 272 | 195 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES | 186 | 155 | All SZGR 2.0 genes in this pathway |
| REACTOME NEURONAL SYSTEM | 279 | 221 | All SZGR 2.0 genes in this pathway |
| REACTOME NEUROTRANSMITTER RECEPTOR BINDING AND DOWNSTREAM TRANSMISSION IN THE POSTSYNAPTIC CELL | 137 | 110 | All SZGR 2.0 genes in this pathway |
| REACTOME ACTIVATION OF KAINATE RECEPTORS UPON GLUTAMATE BINDING | 31 | 23 | All SZGR 2.0 genes in this pathway |
| REACTOME IONOTROPIC ACTIVITY OF KAINATE RECEPTORS | 11 | 11 | All SZGR 2.0 genes in this pathway |
| IWANAGA CARCINOGENESIS BY KRAS DN | 120 | 81 | All SZGR 2.0 genes in this pathway |
| YOSHIMURA MAPK8 TARGETS UP | 1305 | 895 | All SZGR 2.0 genes in this pathway |
| MEISSNER NPC HCP WITH H3K4ME2 | 491 | 319 | All SZGR 2.0 genes in this pathway |
| RATTENBACHER BOUND BY CELF1 | 467 | 251 | All SZGR 2.0 genes in this pathway |