Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CHRNA9 (cholinergic receptor nicotinic alpha 9 subunit)

Identity

Alias_namesnicotinic
alpha 9 (neuronal)
Alias_symbol (synonym)NACHRA9
Other aliasHSA243342
HGNC (Hugo) CHRNA9
LocusID (NCBI) 55584
Atlas_Id 51743
Location 4p14  [Link to chromosome band 4p14]
Location_base_pair Starts at 40337346 and ends at 40357234 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
CHRNA9 (4p14) / IK (5q31.3)

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)CHRNA9   14079
Cards
Entrez_Gene (NCBI)CHRNA9  55584  cholinergic receptor nicotinic alpha 9 subunit
AliasesHSA243342; NACHRA9
GeneCards (Weizmann)CHRNA9
Ensembl hg19 (Hinxton)ENSG00000174343 [Gene_View]  chr4:40337346-40357234 [Contig_View]  CHRNA9 [Vega]
Ensembl hg38 (Hinxton)ENSG00000174343 [Gene_View]  chr4:40337346-40357234 [Contig_View]  CHRNA9 [Vega]
ICGC DataPortalENSG00000174343
TCGA cBioPortalCHRNA9
AceView (NCBI)CHRNA9
Genatlas (Paris)CHRNA9
WikiGenes55584
SOURCE (Princeton)CHRNA9
Genetics Home Reference (NIH)CHRNA9
Genomic and cartography
GoldenPath hg19 (UCSC)CHRNA9  -     chr4:40337346-40357234 +  4p14   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CHRNA9  -     4p14   [Description]    (hg38-Dec_2013)
EnsemblCHRNA9 - 4p14 [CytoView hg19]  CHRNA9 - 4p14 [CytoView hg38]
Mapping of homologs : NCBICHRNA9 [Mapview hg19]  CHRNA9 [Mapview hg38]
OMIM605116   
Gene and transcription
Genbank (Entrez)AF227732 AJ243342 BC111595 BC113549 BC113575
RefSeq transcript (Entrez)NM_017581
RefSeq genomic (Entrez)NC_000004 NC_018915 NT_006238 NW_004929317
Consensus coding sequences : CCDS (NCBI)CHRNA9
Cluster EST : UnigeneHs.272278 [ NCBI ]
CGAP (NCI)Hs.272278
Alternative Splicing GalleryENSG00000174343
Gene ExpressionCHRNA9 [ NCBI-GEO ]   CHRNA9 [ EBI - ARRAY_EXPRESS ]   CHRNA9 [ SEEK ]   CHRNA9 [ MEM ]
Gene Expression Viewer (FireBrowse)CHRNA9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55584
GTEX Portal (Tissue expression)CHRNA9
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UGM1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UGM1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UGM1
Splice isoforms : SwissVarQ9UGM1
PhosPhoSitePlusQ9UGM1
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)CHRNA9
DMDM Disease mutations55584
Blocks (Seattle)CHRNA9
PDB (SRS)4D01    4UXU    4UY2   
PDB (PDBSum)4D01    4UXU    4UY2   
PDB (IMB)4D01    4UXU    4UY2   
PDB (RSDB)4D01    4UXU    4UY2   
Structural Biology KnowledgeBase4D01    4UXU    4UY2   
SCOP (Structural Classification of Proteins)4D01    4UXU    4UY2   
CATH (Classification of proteins structures)4D01    4UXU    4UY2   
SuperfamilyQ9UGM1
Human Protein AtlasENSG00000174343
Peptide AtlasQ9UGM1
HPRD16092
IPIIPI00005432   
Protein Interaction databases
DIP (DOE-UCLA)Q9UGM1
IntAct (EBI)Q9UGM1
FunCoupENSG00000174343
BioGRIDCHRNA9
STRING (EMBL)CHRNA9
ZODIACCHRNA9
Ontologies - Pathways
QuickGOQ9UGM1
Ontology : AmiGOacetylcholine-activated cation-selective channel activity  calcium channel activity  plasma membrane  integral component of plasma membrane  acetylcholine-gated channel complex  signal transduction  positive regulation of cytosolic calcium ion concentration  synaptic transmission, cholinergic  ligand-gated ion channel activity  acetylcholine-gated cation channel activity  cell junction  acetylcholine binding  inner ear morphogenesis  postsynaptic membrane  detection of mechanical stimulus involved in sensory perception of sound  calcium ion transmembrane transport  chemical synaptic transmission, postsynaptic  
Ontology : EGO-EBIacetylcholine-activated cation-selective channel activity  calcium channel activity  plasma membrane  integral component of plasma membrane  acetylcholine-gated channel complex  signal transduction  positive regulation of cytosolic calcium ion concentration  synaptic transmission, cholinergic  ligand-gated ion channel activity  acetylcholine-gated cation channel activity  cell junction  acetylcholine binding  inner ear morphogenesis  postsynaptic membrane  detection of mechanical stimulus involved in sensory perception of sound  calcium ion transmembrane transport  chemical synaptic transmission, postsynaptic  
Pathways : KEGGNeuroactive ligand-receptor interaction   
NDEx NetworkCHRNA9
Atlas of Cancer Signalling NetworkCHRNA9
Wikipedia pathwaysCHRNA9
Orthology - Evolution
OrthoDB55584
GeneTree (enSembl)ENSG00000174343
Phylogenetic Trees/Animal Genes : TreeFamCHRNA9
HOVERGENQ9UGM1
HOGENOMQ9UGM1
Homologs : HomoloGeneCHRNA9
Homology/Alignments : Family Browser (UCSC)CHRNA9
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCHRNA9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CHRNA9
dbVarCHRNA9
ClinVarCHRNA9
1000_GenomesCHRNA9 
Exome Variant ServerCHRNA9
ExAC (Exome Aggregation Consortium)CHRNA9 (select the gene name)
Genetic variants : HAPMAP55584
Genomic Variants (DGV)CHRNA9 [DGVbeta]
DECIPHER (Syndromes)4:40337346-40357234  ENSG00000174343
CONAN: Copy Number AnalysisCHRNA9 
Mutations
ICGC Data PortalCHRNA9 
TCGA Data PortalCHRNA9 
Broad Tumor PortalCHRNA9
OASIS PortalCHRNA9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCHRNA9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCHRNA9
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 CHRNA9
DgiDB (Drug Gene Interaction Database)CHRNA9
DoCM (Curated mutations)CHRNA9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CHRNA9 (select a term)
intoGenCHRNA9
Cancer3DCHRNA9(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605116   
Orphanet
MedgenCHRNA9
Genetic Testing Registry CHRNA9
NextProtQ9UGM1 [Medical]
TSGene55584
GENETestsCHRNA9
Huge Navigator CHRNA9 [HugePedia]
snp3D : Map Gene to Disease55584
BioCentury BCIQCHRNA9
ClinGenCHRNA9
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55584
Chemical/Pharm GKB GenePA26493
Clinical trialCHRNA9
Miscellaneous
canSAR (ICR)CHRNA9 (select the gene name)
Probes
Litterature
PubMed33 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCHRNA9
EVEXCHRNA9
GoPubMedCHRNA9
iHOPCHRNA9
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Thu Mar 30 14:56:34 CEST 2017

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