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CHRNA5 (cholinergic receptor nicotinic alpha 5 subunit)

Identity

Alias_namesnicotinic
alpha 5 (neuronal)
Other aliasLNCR2
HGNC (Hugo) CHRNA5
LocusID (NCBI) 1138
Atlas_Id 50146
Location 15q25.1  [Link to chromosome band 15q25]
Location_base_pair Starts at 78565520 and ends at 78595269 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
PSMA4 (15q25.1) / CHRNA5 (15q25.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)CHRNA5   1959
Cards
Entrez_Gene (NCBI)CHRNA5  1138  cholinergic receptor nicotinic alpha 5 subunit
AliasesLNCR2
GeneCards (Weizmann)CHRNA5
Ensembl hg19 (Hinxton)ENSG00000169684 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000169684 [Gene_View]  chr15:78565520-78595269 [Contig_View]  CHRNA5 [Vega]
ICGC DataPortalENSG00000169684
TCGA cBioPortalCHRNA5
AceView (NCBI)CHRNA5
Genatlas (Paris)CHRNA5
WikiGenes1138
SOURCE (Princeton)CHRNA5
Genetics Home Reference (NIH)CHRNA5
Genomic and cartography
GoldenPath hg38 (UCSC)CHRNA5  -     chr15:78565520-78595269 +  15q25.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CHRNA5  -     15q25.1   [Description]    (hg19-Feb_2009)
EnsemblCHRNA5 - 15q25.1 [CytoView hg19]  CHRNA5 - 15q25.1 [CytoView hg38]
Mapping of homologs : NCBICHRNA5 [Mapview hg19]  CHRNA5 [Mapview hg38]
OMIM118505   612052   
Gene and transcription
Genbank (Entrez)AF385586 AJ584705 AJ584706 BC033639 BC050469
RefSeq transcript (Entrez)NM_000745 NM_001307945
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CHRNA5
Cluster EST : UnigeneHs.719767 [ NCBI ]
CGAP (NCI)Hs.719767
Alternative Splicing GalleryENSG00000169684
Gene ExpressionCHRNA5 [ NCBI-GEO ]   CHRNA5 [ EBI - ARRAY_EXPRESS ]   CHRNA5 [ SEEK ]   CHRNA5 [ MEM ]
Gene Expression Viewer (FireBrowse)CHRNA5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1138
GTEX Portal (Tissue expression)CHRNA5
Protein : pattern, domain, 3D structure
UniProt/SwissProtP30532   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP30532  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP30532
Splice isoforms : SwissVarP30532
PhosPhoSitePlusP30532
Domaine pattern : Prosite (Expaxy)NEUROTR_ION_CHANNEL (PS00236)   
Domains : Interpro (EBI)Acetylcholine_rcpt_TM    Neur_chan_lig-bd    Neur_channel    Neurotrans-gated_channel_TM    Neurotransmitter_ion_chnl_CS    Nicotinic_acetylcholine_rcpt   
Domain families : Pfam (Sanger)Neur_chan_LBD (PF02931)    Neur_chan_memb (PF02932)   
Domain families : Pfam (NCBI)pfam02931    pfam02932   
Conserved Domain (NCBI)CHRNA5
DMDM Disease mutations1138
Blocks (Seattle)CHRNA5
SuperfamilyP30532
Human Protein AtlasENSG00000169684
Peptide AtlasP30532
HPRD00334
IPIIPI00295323   IPI01013904   IPI00742728   
Protein Interaction databases
DIP (DOE-UCLA)P30532
IntAct (EBI)P30532
FunCoupENSG00000169684
BioGRIDCHRNA5
STRING (EMBL)CHRNA5
ZODIACCHRNA5
Ontologies - Pathways
QuickGOP30532
Ontology : AmiGOprotein binding  plasma membrane  acetylcholine-gated channel complex  acetylcholine-gated channel complex  transport  signal transduction  chemical synaptic transmission  synaptic transmission, cholinergic  neuromuscular synaptic transmission  ligand-gated ion channel activity  acetylcholine receptor activity  acetylcholine-gated cation-selective channel activity  acetylcholine-gated cation-selective channel activity  acetylcholine-gated cation-selective channel activity  cell junction  behavioral response to nicotine  acetylcholine binding  postsynaptic membrane  excitatory postsynaptic potential  cation transmembrane transport  
Ontology : EGO-EBIprotein binding  plasma membrane  acetylcholine-gated channel complex  acetylcholine-gated channel complex  transport  signal transduction  chemical synaptic transmission  synaptic transmission, cholinergic  neuromuscular synaptic transmission  ligand-gated ion channel activity  acetylcholine receptor activity  acetylcholine-gated cation-selective channel activity  acetylcholine-gated cation-selective channel activity  acetylcholine-gated cation-selective channel activity  cell junction  behavioral response to nicotine  acetylcholine binding  postsynaptic membrane  excitatory postsynaptic potential  cation transmembrane transport  
Pathways : KEGGNeuroactive ligand-receptor interaction   
NDEx NetworkCHRNA5
Atlas of Cancer Signalling NetworkCHRNA5
Wikipedia pathwaysCHRNA5
Orthology - Evolution
OrthoDB1138
GeneTree (enSembl)ENSG00000169684
Phylogenetic Trees/Animal Genes : TreeFamCHRNA5
HOVERGENP30532
HOGENOMP30532
Homologs : HomoloGeneCHRNA5
Homology/Alignments : Family Browser (UCSC)CHRNA5
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCHRNA5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CHRNA5
dbVarCHRNA5
ClinVarCHRNA5
1000_GenomesCHRNA5 
Exome Variant ServerCHRNA5
ExAC (Exome Aggregation Consortium)CHRNA5 (select the gene name)
Genetic variants : HAPMAP1138
Genomic Variants (DGV)CHRNA5 [DGVbeta]
DECIPHERCHRNA5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCHRNA5 
Mutations
ICGC Data PortalCHRNA5 
TCGA Data PortalCHRNA5 
Broad Tumor PortalCHRNA5
OASIS PortalCHRNA5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCHRNA5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCHRNA5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CHRNA5
DgiDB (Drug Gene Interaction Database)CHRNA5
DoCM (Curated mutations)CHRNA5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CHRNA5 (select a term)
intoGenCHRNA5
Cancer3DCHRNA5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM118505    612052   
Orphanet
MedgenCHRNA5
Genetic Testing Registry CHRNA5
NextProtP30532 [Medical]
TSGene1138
GENETestsCHRNA5
Huge Navigator CHRNA5 [HugePedia]
snp3D : Map Gene to Disease1138
BioCentury BCIQCHRNA5
ClinGenCHRNA5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1138
Chemical/Pharm GKB GenePA26491
Clinical trialCHRNA5
Miscellaneous
canSAR (ICR)CHRNA5 (select the gene name)
Probes
Litterature
PubMed204 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCHRNA5
EVEXCHRNA5
GoPubMedCHRNA5
iHOPCHRNA5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:10:36 CEST 2017

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