Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SCN3B (sodium voltage-gated channel beta subunit 3)

Identity

Alias_namessodium channel, voltage-gated, type III, beta
sodium channel, voltage-gated, type III, beta subunit
sodium channel, voltage gated, type III beta subunit
Alias_symbol (synonym)HSA243396
Other aliasATFB16
BRGDA7
SCNB3
HGNC (Hugo) SCN3B
LocusID (NCBI) 55800
Atlas_Id 45847
Location 11q24.1  [Link to chromosome band 11q24]
Location_base_pair Starts at 123629187 and ends at 123654607 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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)SCN3B   20665
LRG (Locus Reference Genomic)LRG_421
Cards
Entrez_Gene (NCBI)SCN3B  55800  sodium voltage-gated channel beta subunit 3
AliasesATFB16; BRGDA7; HSA243396; SCNB3
GeneCards (Weizmann)SCN3B
Ensembl hg19 (Hinxton)ENSG00000166257 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000166257 [Gene_View]  ENSG00000166257 [Sequence]  chr11:123629187-123654607 [Contig_View]  SCN3B [Vega]
ICGC DataPortalENSG00000166257
TCGA cBioPortalSCN3B
AceView (NCBI)SCN3B
Genatlas (Paris)SCN3B
WikiGenes55800
SOURCE (Princeton)SCN3B
Genetics Home Reference (NIH)SCN3B
Genomic and cartography
GoldenPath hg38 (UCSC)SCN3B  -     chr11:123629187-123654607 -  11q24.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCN3B  -     11q24.1   [Description]    (hg19-Feb_2009)
GoldenPathSCN3B - 11q24.1 [CytoView hg19]  SCN3B - 11q24.1 [CytoView hg38]
ImmunoBaseENSG00000166257
Mapping of homologs : NCBISCN3B [Mapview hg19]  SCN3B [Mapview hg38]
OMIM608214   613120   
Gene and transcription
Genbank (Entrez)AB032984 AJ243396 AK055033 AK314513 AL136589
RefSeq transcript (Entrez)NM_001040151 NM_018400
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCN3B
Cluster EST : UnigeneHs.4865 [ NCBI ]
CGAP (NCI)Hs.4865
Alternative Splicing GalleryENSG00000166257
Gene ExpressionSCN3B [ NCBI-GEO ]   SCN3B [ EBI - ARRAY_EXPRESS ]   SCN3B [ SEEK ]   SCN3B [ MEM ]
Gene Expression Viewer (FireBrowse)SCN3B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55800
GTEX Portal (Tissue expression)SCN3B
Human Protein AtlasENSG00000166257-SCN3B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NY72   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NY72  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NY72
Splice isoforms : SwissVarQ9NY72
PhosPhoSitePlusQ9NY72
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)Ig-like_dom    Ig-like_dom_sf    Ig-like_fold    Ig_sub    Ig_V-set    Na_channel_b1/b3    Na_channel_b3   
Domain families : Pfam (Sanger)V-set (PF07686)   
Domain families : Pfam (NCBI)pfam07686   
Domain families : Smart (EMBL)IG (SM00409)  
Conserved Domain (NCBI)SCN3B
DMDM Disease mutations55800
Blocks (Seattle)SCN3B
PDB (RSDB)4L1D   
PDB Europe4L1D   
PDB (PDBSum)4L1D   
PDB (IMB)4L1D   
Structural Biology KnowledgeBase4L1D   
SCOP (Structural Classification of Proteins)4L1D   
CATH (Classification of proteins structures)4L1D   
SuperfamilyQ9NY72
Human Protein Atlas [tissue]ENSG00000166257-SCN3B [tissue]
Peptide AtlasQ9NY72
HPRD10497
IPIIPI00020747   IPI00982141   IPI00984281   
Protein Interaction databases
DIP (DOE-UCLA)Q9NY72
IntAct (EBI)Q9NY72
FunCoupENSG00000166257
BioGRIDSCN3B
STRING (EMBL)SCN3B
ZODIACSCN3B
Ontologies - Pathways
QuickGOQ9NY72
Ontology : AmiGOvoltage-gated sodium channel complex  voltage-gated sodium channel complex  voltage-gated sodium channel complex  voltage-gated ion channel activity  voltage-gated sodium channel activity  plasma membrane  sodium ion transport  nervous system development  positive regulation of heart rate  positive regulation of sodium ion transport  positive regulation of sodium ion transport  integral component of membrane  sodium channel regulator activity  sodium channel regulator activity  sensory perception of pain  sodium channel inhibitor activity  Z disc  sodium ion transmembrane transport  ion channel binding  ion channel binding  membrane depolarization  cardiac muscle contraction  regulation of atrial cardiac muscle cell membrane depolarization  regulation of ventricular cardiac muscle cell membrane depolarization  protein localization to plasma membrane  cardiac muscle cell action potential involved in contraction  cardiac muscle cell action potential involved in contraction  ventricular cardiac muscle cell action potential  ventricular cardiac muscle cell action potential  voltage-gated sodium channel activity involved in cardiac muscle cell action potential  voltage-gated sodium channel activity involved in cardiac muscle cell action potential  membrane depolarization during action potential  membrane depolarization during action potential  membrane depolarization during cardiac muscle cell action potential  atrial cardiac muscle cell action potential  SA node cell action potential  regulation of heart rate by cardiac conduction  regulation of heart rate by cardiac conduction  regulation of sodium ion transmembrane transporter activity  regulation of sodium ion transmembrane transporter activity  
Ontology : EGO-EBIvoltage-gated sodium channel complex  voltage-gated sodium channel complex  voltage-gated sodium channel complex  voltage-gated ion channel activity  voltage-gated sodium channel activity  plasma membrane  sodium ion transport  nervous system development  positive regulation of heart rate  positive regulation of sodium ion transport  positive regulation of sodium ion transport  integral component of membrane  sodium channel regulator activity  sodium channel regulator activity  sensory perception of pain  sodium channel inhibitor activity  Z disc  sodium ion transmembrane transport  ion channel binding  ion channel binding  membrane depolarization  cardiac muscle contraction  regulation of atrial cardiac muscle cell membrane depolarization  regulation of ventricular cardiac muscle cell membrane depolarization  protein localization to plasma membrane  cardiac muscle cell action potential involved in contraction  cardiac muscle cell action potential involved in contraction  ventricular cardiac muscle cell action potential  ventricular cardiac muscle cell action potential  voltage-gated sodium channel activity involved in cardiac muscle cell action potential  voltage-gated sodium channel activity involved in cardiac muscle cell action potential  membrane depolarization during action potential  membrane depolarization during action potential  membrane depolarization during cardiac muscle cell action potential  atrial cardiac muscle cell action potential  SA node cell action potential  regulation of heart rate by cardiac conduction  regulation of heart rate by cardiac conduction  regulation of sodium ion transmembrane transporter activity  regulation of sodium ion transmembrane transporter activity  
NDEx NetworkSCN3B
Atlas of Cancer Signalling NetworkSCN3B
Wikipedia pathwaysSCN3B
Orthology - Evolution
OrthoDB55800
GeneTree (enSembl)ENSG00000166257
Phylogenetic Trees/Animal Genes : TreeFamSCN3B
HOGENOMQ9NY72
Homologs : HomoloGeneSCN3B
Homology/Alignments : Family Browser (UCSC)SCN3B
Gene fusions - Rearrangements
Fusion : QuiverSCN3B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCN3B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCN3B
dbVarSCN3B
ClinVarSCN3B
1000_GenomesSCN3B 
Exome Variant ServerSCN3B
ExAC (Exome Aggregation Consortium)ENSG00000166257
GNOMAD BrowserENSG00000166257
Varsome BrowserSCN3B
Genetic variants : HAPMAP55800
Genomic Variants (DGV)SCN3B [DGVbeta]
DECIPHERSCN3B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCN3B 
Mutations
ICGC Data PortalSCN3B 
TCGA Data PortalSCN3B 
Broad Tumor PortalSCN3B
OASIS PortalSCN3B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCN3B  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSCN3B
Mutations and Diseases : HGMDSCN3B
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 SCN3B
DgiDB (Drug Gene Interaction Database)SCN3B
DoCM (Curated mutations)SCN3B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCN3B (select a term)
intoGenSCN3B
Cancer3DSCN3B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608214    613120   
Orphanet8022    8592   
DisGeNETSCN3B
MedgenSCN3B
Genetic Testing Registry SCN3B
NextProtQ9NY72 [Medical]
TSGene55800
GENETestsSCN3B
Target ValidationSCN3B
Huge Navigator SCN3B [HugePedia]
snp3D : Map Gene to Disease55800
BioCentury BCIQSCN3B
ClinGenSCN3B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55800
Chemical/Pharm GKB GenePA130546912
Clinical trialSCN3B
Miscellaneous
canSAR (ICR)SCN3B (select the gene name)
DataMed IndexSCN3B
Probes
Litterature
PubMed37 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCN3B
EVEXSCN3B
GoPubMedSCN3B
iHOPSCN3B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Nov 13 18:06:25 CET 2019
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.