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SCN9A (sodium voltage-gated channel alpha subunit 9)

Identity

Other namesETHA
FEB3B
GEFSP7
HSAN2D
NE-NA
NENA
Nav1.7
PN1
SFNP
HGNC (Hugo) SCN9A
LocusID (NCBI) 6335
Atlas_Id 43758
Location 2q24.3  [Link to chromosome band 2q24]
Location_base_pair Starts at 167051697 and ends at 167232497 bp from pter ( according to hg19-Feb_2009)

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)SCN9A   10597
Cards
Entrez_Gene (NCBI)SCN9A  6335  sodium voltage-gated channel alpha subunit 9
AliasesETHA; FEB3B; GEFSP7; HSAN2D; 
NE-NA; NENA; Nav1.7; PN1; SFNP
GeneCards (Weizmann)SCN9A
Ensembl hg19 (Hinxton)ENSG00000169432 [Gene_View]  chr2:167051697-167232497 [Contig_View]  SCN9A [Vega]
Ensembl hg38 (Hinxton)ENSG00000169432 [Gene_View]  chr2:167051697-167232497 [Contig_View]  SCN9A [Vega]
ICGC DataPortalENSG00000169432
TCGA cBioPortalSCN9A
AceView (NCBI)SCN9A
Genatlas (Paris)SCN9A
WikiGenes6335
SOURCE (Princeton)SCN9A
Genomic and cartography
GoldenPath hg19 (UCSC)SCN9A  -     chr2:167051697-167232497 -  2q24.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SCN9A  -     2q24.3   [Description]    (hg38-Dec_2013)
EnsemblSCN9A - 2q24.3 [CytoView hg19]  SCN9A - 2q24.3 [CytoView hg38]
Mapping of homologs : NCBISCN9A [Mapview hg19]  SCN9A [Mapview hg38]
OMIM133020   167400   201300   243000   603415   607208   613863   
Gene and transcription
Genbank (Entrez)AJ277393 AJ310882 AJ310883 AJ310897 AK307549
RefSeq transcript (Entrez)NM_002977
RefSeq genomic (Entrez)NC_000002 NC_018913 NG_012798 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)SCN9A
Cluster EST : UnigeneHs.439145 [ NCBI ]
CGAP (NCI)Hs.439145
Alternative Splicing GalleryENSG00000169432
Gene ExpressionSCN9A [ NCBI-GEO ]   SCN9A [ EBI - ARRAY_EXPRESS ]   SCN9A [ SEEK ]   SCN9A [ MEM ]
Gene Expression Viewer (FireBrowse)SCN9A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6335
GTEX Portal (Tissue expression)SCN9A
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15858 (Uniprot)
NextProtQ15858  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ15858
Splice isoforms : SwissVarQ15858 (Swissvar)
PhosPhoSitePlusQ15858
Domains : Interpro (EBI)Channel_four-helix_dom    Ion_trans_dom    IQ_motif_EF-hand-BS    Na_channel_asu    Na_trans_assoc    Na_trans_cytopl    SCN9A   
Domain families : Pfam (Sanger)Ion_trans (PF00520)    Na_trans_assoc (PF06512)    Na_trans_cytopl (PF11933)   
Domain families : Pfam (NCBI)pfam00520    pfam06512    pfam11933   
Domain families : Smart (EMBL)IQ (SM00015)  
DMDM Disease mutations6335
Blocks (Seattle)SCN9A
PDB (SRS)5EK0   
PDB (PDBSum)5EK0   
PDB (IMB)5EK0   
PDB (RSDB)5EK0   
Structural Biology KnowledgeBase5EK0   
SCOP (Structural Classification of Proteins)5EK0   
CATH (Classification of proteins structures)5EK0   
SuperfamilyQ15858
Human Protein AtlasENSG00000169432
Peptide AtlasQ15858
HPRD04565
IPIIPI00745570   IPI00154944   IPI00479414   IPI00917567   
Protein Interaction databases
DIP (DOE-UCLA)Q15858
IntAct (EBI)Q15858
FunCoupENSG00000169432
BioGRIDSCN9A
STRING (EMBL)SCN9A
ZODIACSCN9A
Ontologies - Pathways
QuickGOQ15858
Ontology : AmiGOvoltage-gated sodium channel complex  voltage-gated sodium channel activity  integral component of plasma membrane  sodium ion transport  inflammatory response  response to toxic substance  post-embryonic development  neuronal action potential  sensory perception of pain  sodium ion binding  regulation of ion transmembrane transport  sodium ion transmembrane transport  cell projection  behavioral response to pain  regulation of postsynaptic membrane potential  regulation of postsynaptic membrane potential  regulation of postsynaptic membrane potential  membrane depolarization during action potential  
Ontology : EGO-EBIvoltage-gated sodium channel complex  voltage-gated sodium channel activity  integral component of plasma membrane  sodium ion transport  inflammatory response  response to toxic substance  post-embryonic development  neuronal action potential  sensory perception of pain  sodium ion binding  regulation of ion transmembrane transport  sodium ion transmembrane transport  cell projection  behavioral response to pain  regulation of postsynaptic membrane potential  regulation of postsynaptic membrane potential  regulation of postsynaptic membrane potential  membrane depolarization during action potential  
NDEx NetworkSCN9A
Atlas of Cancer Signalling NetworkSCN9A
Wikipedia pathwaysSCN9A
Orthology - Evolution
OrthoDB6335
GeneTree (enSembl)ENSG00000169432
Phylogenetic Trees/Animal Genes : TreeFamSCN9A
Homologs : HomoloGeneSCN9A
Homology/Alignments : Family Browser (UCSC)SCN9A
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSCN9A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCN9A
dbVarSCN9A
ClinVarSCN9A
1000_GenomesSCN9A 
Exome Variant ServerSCN9A
ExAC (Exome Aggregation Consortium)SCN9A (select the gene name)
Genetic variants : HAPMAP6335
Genomic Variants (DGV)SCN9A [DGVbeta]
Mutations
ICGC Data PortalSCN9A 
TCGA Data PortalSCN9A 
Broad Tumor PortalSCN9A
OASIS PortalSCN9A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCN9A 
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
LOVD (Leiden Open Variation Database)Mendelian genes
BioMutasearch SCN9A
DgiDB (Drug Gene Interaction Database)SCN9A
DoCM (Curated mutations)SCN9A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCN9A (select a term)
intoGenSCN9A
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)2:167051697-167232497  ENSG00000169432
CONAN: Copy Number AnalysisSCN9A 
Mutations and Diseases : HGMDSCN9A
OMIM133020    167400    201300    243000    603415    607208    613863   
MedgenSCN9A
Genetic Testing Registry SCN9A
NextProtQ15858 [Medical]
TSGene6335
GENETestsSCN9A
Huge Navigator SCN9A [HugePedia]
snp3D : Map Gene to Disease6335
BioCentury BCIQSCN9A
ClinGenSCN9A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6335
Chemical/Pharm GKB GenePA35010
Clinical trialSCN9A
Miscellaneous
canSAR (ICR)SCN9A (select the gene name)
Probes
Litterature
PubMed116 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCN9A
EVEXSCN9A
GoPubMedSCN9A
iHOPSCN9A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 19 19:12:17 CEST 2016

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