Gene Page: GLRA3

Summary ?
GeneID8001
SymbolGLRA3
Synonyms-
Descriptionglycine receptor alpha 3
ReferenceMIM:600421|HGNC:HGNC:4328|Ensembl:ENSG00000145451|HPRD:02688|Vega:OTTHUMG00000149816
Gene typeprotein-coding
Map location4q34.1
Pascal p-value0.732
DMG1 (# studies)
eGenePutamen basal ganglia
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 4 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg098414884175750527GLRA32.667E-4-0.2360.038DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs695809chr2226278127GLRA380010.05trans
rs3304784176050287GLRA3ENSG00000145451.82.10962E-60.02-299822gtex_brain_putamen_basal
rs58643114176108113GLRA3ENSG00000145451.82.54893E-60.02-357648gtex_brain_putamen_basal
rs14914164176109168GLRA3ENSG00000145451.88.63185E-70.02-358703gtex_brain_putamen_basal
rs11218674176111188GLRA3ENSG00000145451.82.89645E-60.02-360723gtex_brain_putamen_basal
rs126412124176114955GLRA3ENSG00000145451.88.8121E-70.02-364490gtex_brain_putamen_basal

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
WARS0.910.91
ITFG10.900.88
SUCLA20.900.88
PRKAR1A0.900.91
ATP2A20.890.90
AP3M20.890.89
PLEKHB20.890.92
YWHAB0.890.87
ARL8B0.890.91
NDUFS10.890.87
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.21-0.59-0.37
AF347015.18-0.56-0.40
AP002478.3-0.54-0.46
AF347015.2-0.53-0.34
MT-CO2-0.53-0.38
HIGD1B-0.52-0.38
AC098691.2-0.52-0.41
AF347015.8-0.52-0.37
CSAG1-0.51-0.39
AL139819.3-0.51-0.43

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0030594neurotransmitter receptor activityIEANeurotransmitter (GO term level: 5)-
GO:0004890GABA-A receptor activityIEAGABA (GO term level: 7)-
GO:0005216ion channel activityIEA-
GO:0005230extracellular ligand-gated ion channel activityIEA-
GO:0005230extracellular ligand-gated ion channel activityNAS-
GO:0016934extracellular-glycine-gated chloride channel activityIEA-
GO:0031404chloride ion bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007268synaptic transmissionNASneuron, Synap, Neurotransmitter (GO term level: 6)-
GO:0006821chloride transportIEA-
GO:0006811ion transportIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0045211postsynaptic membraneIEASynap, Neurotransmitter (GO term level: 5)-
GO:0045202synapseIEAneuron, Synap, Neurotransmitter, Glial (GO term level: 2)-
GO:0016021integral to membraneIEA-
GO:0016021integral to membraneNAS-
GO:0005886plasma membraneIEA-
GO:0030054cell junctionIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION 272195All SZGR 2.0 genes in this pathway
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES 413270All SZGR 2.0 genes in this pathway
REACTOME ION CHANNEL TRANSPORT 5542All SZGR 2.0 genes in this pathway
REACTOME LIGAND GATED ION CHANNEL TRANSPORT 2121All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS 775494All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
LEIN MIDBRAIN MARKERS 8255All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469239All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS CANCER UP 3123All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC 1103714All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721492All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3 718401All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM A 182108All SZGR 2.0 genes in this pathway