Gene Page: GRIN2C

Summary ?
GeneID2905
SymbolGRIN2C
SynonymsGluN2C|NMDAR2C|NR2C
Descriptionglutamate ionotropic receptor NMDA type subunit 2C
ReferenceMIM:138254|HGNC:HGNC:4587|Ensembl:ENSG00000161509|HPRD:00699|Vega:OTTHUMG00000044524
Gene typeprotein-coding
Map location17q25.1
Pascal p-value0.937
Sherlock p-value0.454
Fetal beta-1.591
eGeneMyers' cis & trans
SupportLIGAND GATED ION SIGNALING
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 10 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs16829545chr2151977407GRIN2C29056.065E-15trans
rs3845734chr2171125572GRIN2C29050trans
rs7584986chr2184111432GRIN2C29052.232E-5trans
rs2183142chr4159232695GRIN2C29050.03trans
rs1396222chr4173279496GRIN2C29050.17trans
rs335980chr4173329784GRIN2C29050.18trans
rs337984chr4173411662GRIN2C29050.05trans
rs9461864chr633481468GRIN2C29050trans
rs16890367chr638078448GRIN2C29050.03trans
rs7787830chr798797019GRIN2C29050.06trans
rs3118341chr925185518GRIN2C29050trans
rs1126130chr925209346GRIN2C29050.15trans
rs9406868chr925223372GRIN2C29050.04trans
rs11139334chr984209393GRIN2C29050.06trans
rs16955618chr1529937543GRIN2C29059.25E-20trans
rs16945437chr1711797650GRIN2C29050.09trans
rs11873184chr181584081GRIN2C29050.03trans
rs11882889chr1919887684GRIN2C29050.12trans
rs1041786chr2122617710GRIN2C29050trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
GenePearson's Correlation Spearman's Correlation
SOSTDC10.800.52
CLDN10.710.37
PROM10.700.34
WNT110.700.37
MYO160.680.41
ADAMTSL30.670.44
GDF100.670.58
RASGEF1C0.650.39
TAL20.630.21
TRAF50.630.43
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
REEP6-0.35-0.24
RHBDL3-0.32-0.35
NFE2L2-0.31-0.15
FAM162A-0.28-0.09
NPC2-0.28-0.13
RENBP-0.28-0.11
AIF1L-0.28-0.19
HLA-F-0.28-0.05
QPRT-0.28-0.11
GM2A-0.28-0.16

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004972N-methyl-D-aspartate selective glutamate receptor activityIEAglutamate (GO term level: 8)-
GO:0004972N-methyl-D-aspartate selective glutamate receptor activityTASglutamate (GO term level: 8)9798920 
GO:0005234extracellular-glutamate-gated ion channel activityIEAglutamate (GO term level: 11)-
GO:0035254glutamate receptor bindingIEAglutamate (GO term level: 5)-
GO:0000287magnesium ion bindingIEA-
GO:0004872receptor activityIEA-
GO:0005509calcium ion bindingIEA-
GO:0005515protein bindingIEA-
GO:0005261cation channel activityIEA-
GO:0005216ion channel activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0060079regulation of excitatory postsynaptic membrane potentialIEAneuron, Synap (GO term level: 10)-
GO:0048167regulation of synaptic plasticityIEASynap (GO term level: 8)-
GO:0007215glutamate signaling pathwayTASglutamate (GO term level: 7)9798920 
GO:0009611response to woundingIEA-
GO:0008104protein localizationIEA-
GO:0006811ion transportIEA-
GO:0042177negative regulation of protein catabolic processIEA-
GO:0042391regulation of membrane potentialIEA-
GO:0033058directional locomotionIEA-
GO:0050885neuromuscular process controlling balanceIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0014069postsynaptic densityIEASynap (GO term level: 10)-
GO:0017146N-methyl-D-aspartate selective glutamate receptor complexIEAglutamate, Synap (GO term level: 10)-
GO:0045211postsynaptic membraneIEASynap, Neurotransmitter (GO term level: 5)-
GO:0045202synapseIEAneuron, Synap, Neurotransmitter, Glial (GO term level: 2)-
GO:0016021integral to membraneIEA-
GO:0005886plasma membraneIEA-
GO:0005887integral to plasma membraneTAS9798920 
GO:0030054cell junctionIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG CALCIUM SIGNALING PATHWAY 178134All SZGR 2.0 genes in this pathway
KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION 272195All SZGR 2.0 genes in this pathway
KEGG LONG TERM POTENTIATION 7057All SZGR 2.0 genes in this pathway
KEGG ALZHEIMERS DISEASE 169110All SZGR 2.0 genes in this pathway
KEGG AMYOTROPHIC LATERAL SCLEROSIS ALS 5343All SZGR 2.0 genes in this pathway
BIOCARTA NOS1 PATHWAY 2421All SZGR 2.0 genes in this pathway
REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES 186155All SZGR 2.0 genes in this pathway
REACTOME NEURONAL SYSTEM 279221All SZGR 2.0 genes in this pathway
REACTOME NEUROTRANSMITTER RECEPTOR BINDING AND DOWNSTREAM TRANSMISSION IN THE POSTSYNAPTIC CELL 137110All SZGR 2.0 genes in this pathway
REACTOME RAS ACTIVATION UOPN CA2 INFUX THROUGH NMDA RECEPTOR 1715All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF NMDA RECEPTOR UPON GLUTAMATE BINDING AND POSTSYNAPTIC EVENTS 3732All SZGR 2.0 genes in this pathway
REACTOME CREB PHOSPHORYLATION THROUGH THE ACTIVATION OF RAS 2723All SZGR 2.0 genes in this pathway
REACTOME POST NMDA RECEPTOR ACTIVATION EVENTS 3328All SZGR 2.0 genes in this pathway
REACTOME UNBLOCKING OF NMDA RECEPTOR GLUTAMATE BINDING AND ACTIVATION 1514All SZGR 2.0 genes in this pathway
REACTOME CREB PHOSPHORYLATION THROUGH THE ACTIVATION OF CAMKII 1514All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS UP 456228All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 17Q21 Q25 AMPLICON 335181All SZGR 2.0 genes in this pathway
NIKOLSKY MUTATED AND AMPLIFIED IN BREAST CANCER 9460All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882572All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE UP 249170All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP 294199All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536296All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069729All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 HCP WITH H3K27ME3 435318All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590403All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway