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SCN9A (sodium channel, voltage-gated, type IX, alpha subunit)

Identity

Other namesETHA
FEB3B
GEFSP7
NE-NA
NENA
Nav1.7
PN1
SFNP
HGNC (Hugo) SCN9A
LocusID (NCBI) 6335
Location 2q24.3
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 channel, voltage-gated, type IX, alpha subunit
GeneCards (Weizmann)SCN9A
Ensembl (Hinxton)ENSG00000169432 [Gene_View]  chr2:167051697-167232497 [Contig_View]  SCN9A [Vega]
ICGC DataPortalENSG00000169432
cBioPortalSCN9A
AceView (NCBI)SCN9A
Genatlas (Paris)SCN9A
WikiGenes6335
SOURCE (Princeton)NM_002977
Genomic and cartography
GoldenPath (UCSC)SCN9A  -  2q24.3   chr2:167051697-167232497 -  2q24.3   [Description]    (hg19-Feb_2009)
EnsemblSCN9A - 2q24.3 [CytoView]
Mapping of homologs : NCBISCN9A [Mapview]
OMIM133020   167400   243000   603415   607208   613863   
Gene and transcription
Genbank (Entrez)AJ277393 AJ310882 AJ310883 AJ310897 AK307549
RefSeq transcript (Entrez)NM_002977
RefSeq genomic (Entrez)AC_000134 NC_000002 NC_018913 NG_012798 NT_005403 NW_001838860 NW_004929305
Consensus coding sequences : CCDS (NCBI)SCN9A
Cluster EST : UnigeneHs.439145 [ NCBI ]
CGAP (NCI)Hs.439145
Alternative Splicing : Fast-db (Paris)GSHG0018127
Alternative Splicing GalleryENSG00000169432
Gene ExpressionSCN9A [ NCBI-GEO ]     SCN9A [ SEEK ]   SCN9A [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15858 (Uniprot)
NextProtQ15858  [Medical]
With graphics : InterProQ15858
Splice isoforms : SwissVarQ15858 (Swissvar)
Domains : Interpro (EBI)Channel_four-helix_dom [organisation]   DUF3451 [organisation]   Ion_trans_dom [organisation]   IQ_motif_EF-hand-BS [organisation]   Na_channel_asu [organisation]   Na_trans_assoc [organisation]   SCN9A [organisation]  
Related proteins : CluSTrQ15858
Domain families : Pfam (Sanger)DUF3451 (PF11933)    Ion_trans (PF00520)    Na_trans_assoc (PF06512)   
Domain families : Pfam (NCBI)pfam11933    pfam00520    pfam06512   
Domain families : Smart (EMBL)IQ (SM00015)  
DMDM Disease mutations6335
Blocks (Seattle)Q15858
Human Protein AtlasENSG00000169432 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasQ15858
HPRD04565
IPIIPI00745570   IPI00154944   IPI00479414   IPI00917567   
Protein Interaction databases
DIP (DOE-UCLA)Q15858
IntAct (EBI)Q15858
FunCoupENSG00000169432
BioGRIDSCN9A
InParanoidQ15858
Interologous Interaction database Q15858
IntegromeDBSCN9A
STRING (EMBL)SCN9A
Ontologies - Pathways
Ontology : AmiGOvoltage-gated sodium channel complex  voltage-gated sodium channel activity  plasma membrane  sodium ion transport  inflammatory response  response to toxic substance  post-embryonic development  neuronal action potential  sodium ion binding  regulation of ion transmembrane transport  sodium ion transmembrane transport  behavioral response to pain  membrane depolarization during action potential  
Ontology : EGO-EBIvoltage-gated sodium channel complex  voltage-gated sodium channel activity  plasma membrane  sodium ion transport  inflammatory response  response to toxic substance  post-embryonic development  neuronal action potential  sodium ion binding  regulation of ion transmembrane transport  sodium ion transmembrane transport  behavioral response to pain  membrane depolarization during action potential  
Protein Interaction DatabaseSCN9A
Wikipedia pathwaysSCN9A
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)SCN9A
snp3D : Map Gene to Disease6335
SNP (GeneSNP Utah)SCN9A
SNP : HGBaseSCN9A
Genetic variants : HAPMAPSCN9A
Exome VariantSCN9A
1000_GenomesSCN9A 
ICGC programENSG00000169432 
Somatic Mutations in Cancer : COSMICSCN9A 
CONAN: Copy Number AnalysisSCN9A 
Mutations and Diseases : HGMDSCN9A
Mutations and Diseases : intOGenSCN9A
Genomic VariantsSCN9A  SCN9A [DGVbeta]
dbVarSCN9A
ClinVarSCN9A
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM133020    167400    243000    603415    607208    613863   
MedgenSCN9A
GENETestsSCN9A
Disease Genetic AssociationSCN9A
Huge Navigator SCN9A [HugePedia]  SCN9A [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneSCN9A
Homology/Alignments : Family Browser (UCSC)SCN9A
Phylogenetic Trees/Animal Genes : TreeFamSCN9A
Chemical/Protein Interactions : CTD6335
Chemical/Pharm GKB GenePA35010
Clinical trialSCN9A
Cancer Resource (Charite)ENSG00000169432
Other databases
Probes
Litterature
PubMed103 Pubmed reference(s) in Entrez
CoreMineSCN9A
iHOPSCN9A
OncoSearchSCN9A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 22 19:16:51 CEST 2014

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