Gene Page: CHRNA9

Summary ?
GeneID55584
SymbolCHRNA9
SynonymsHSA243342|NACHRA9
Descriptioncholinergic receptor nicotinic alpha 9 subunit
ReferenceMIM:605116|HGNC:HGNC:14079|Ensembl:ENSG00000174343|HPRD:16092|Vega:OTTHUMG00000099375
Gene typeprotein-coding
Map location4p14
Pascal p-value0.483
Fetal beta-0.082
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 2 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs2190759chr1755794698CHRNA9555840.18trans

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
ITGB40.710.58
FAM179A0.660.55
AC103809.10.660.60
TXNDC60.660.54
AK70.660.48
LRRC430.650.56
CHST60.650.59
DNAH60.640.42
AC079354.20.640.48
DNAH20.640.33
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
EMID1-0.37-0.48
IER5L-0.36-0.42
CYP26A1-0.35-0.52
ARL4D-0.35-0.42
MPPED1-0.35-0.41
MEF2C-0.35-0.37
RPRM-0.35-0.41
B4GALT2-0.34-0.42
MAFB-0.34-0.36
NFKBIE-0.34-0.41

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0030594neurotransmitter receptor activityIEANeurotransmitter (GO term level: 5)-
GO:0004889nicotinic acetylcholine-activated cation-selective channel activityIEA-
GO:0005509calcium ion bindingIEA-
GO:0005262calcium channel activityIEA-
GO:0005216ion channel activityIEA-
GO:0005230extracellular ligand-gated ion channel activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006816calcium ion 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: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 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 ACETYLCHOLINE BINDING AND DOWNSTREAM EVENTS 1613All SZGR 2.0 genes in this pathway
REACTOME HIGHLY CALCIUM PERMEABLE POSTSYNAPTIC NICOTINIC ACETYLCHOLINE RECEPTORS 1312All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP 457269All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS UP 238144All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP 501327All SZGR 2.0 genes in this pathway
CLIMENT BREAST CANCER COPY NUMBER DN 87All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3 718401All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway