Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SNCA (synuclein alpha)

Identity

Alias_namesPARK1
PARK4
Parkinson disease (autosomal dominant, Lewy body) 4
synuclein, alpha (non A4 component of amyloid precursor)
Alias_symbol (synonym)NACP
PD1
alpha-synuclein
Other alias
HGNC (Hugo) SNCA
LocusID (NCBI) 6622
Atlas_Id 46121
Location 4q22.1  [Link to chromosome band 4q22]
Location_base_pair Starts at 89724099 and ends at 89836976 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)
APOL2 (22q12.3) / SNCA (4q22.1)

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)SNCA   11138
Cards
Entrez_Gene (NCBI)SNCA  6622  synuclein alpha
AliasesNACP; PARK1; PARK4; PD1
GeneCards (Weizmann)SNCA
Ensembl hg19 (Hinxton)ENSG00000145335 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000145335 [Gene_View]  chr4:89724099-89836976 [Contig_View]  SNCA [Vega]
ICGC DataPortalENSG00000145335
TCGA cBioPortalSNCA
AceView (NCBI)SNCA
Genatlas (Paris)SNCA
WikiGenes6622
SOURCE (Princeton)SNCA
Genetics Home Reference (NIH)SNCA
Genomic and cartography
GoldenPath hg38 (UCSC)SNCA  -     chr4:89724099-89836976 -  4q22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNCA  -     4q22.1   [Description]    (hg19-Feb_2009)
EnsemblSNCA - 4q22.1 [CytoView hg19]  SNCA - 4q22.1 [CytoView hg38]
Mapping of homologs : NCBISNCA [Mapview hg19]  SNCA [Mapview hg38]
OMIM127750   163890   168601   605543   
Gene and transcription
Genbank (Entrez)AI815523 AK290169 AY049786 BC013293 BC108275
RefSeq transcript (Entrez)NM_000345 NM_001146054 NM_001146055 NM_007308
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNCA
Cluster EST : UnigeneHs.21374 [ NCBI ]
CGAP (NCI)Hs.21374
Alternative Splicing GalleryENSG00000145335
Gene ExpressionSNCA [ NCBI-GEO ]   SNCA [ EBI - ARRAY_EXPRESS ]   SNCA [ SEEK ]   SNCA [ MEM ]
Gene Expression Viewer (FireBrowse)SNCA [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6622
GTEX Portal (Tissue expression)SNCA
Human Protein AtlasENSG00000145335-SNCA [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP37840   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP37840  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP37840
Splice isoforms : SwissVarP37840
PhosPhoSitePlusP37840
Domains : Interpro (EBI)Synuclein    Synuclein_alpha   
Domain families : Pfam (Sanger)Synuclein (PF01387)   
Domain families : Pfam (NCBI)pfam01387   
Conserved Domain (NCBI)SNCA
DMDM Disease mutations6622
Blocks (Seattle)SNCA
PDB (SRS)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (PDBSum)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (IMB)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (RSDB)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
Structural Biology KnowledgeBase1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
SCOP (Structural Classification of Proteins)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
CATH (Classification of proteins structures)1XQ8    2JN5    2KKW    2M55    2N0A    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
SuperfamilyP37840
Human Protein Atlas [tissue]ENSG00000145335-SNCA [tissue]
Peptide AtlasP37840
HPRD01227
IPIIPI00024107   IPI00218467   IPI00218468   IPI00964973   IPI00965305   
Protein Interaction databases
DIP (DOE-UCLA)P37840
IntAct (EBI)P37840
FunCoupENSG00000145335
BioGRIDSNCA
STRING (EMBL)SNCA
ZODIACSNCA
Ontologies - Pathways
QuickGOP37840
Ontology : AmiGOnegative regulation of transcription by RNA polymerase II  magnesium ion binding  microglial cell activation  positive regulation of receptor recycling  negative regulation of protein phosphorylation  positive regulation of neurotransmitter secretion  fatty acid binding  copper ion binding  calcium ion binding  protein binding  phospholipid binding  extracellular region  extracellular region  extracellular space  nucleus  nuclear outer membrane  cytoplasm  mitochondrion  mitochondrial respiratory chain complex I  lysosome  rough endoplasmic reticulum  Golgi apparatus  cytosol  cytosol  ribosome  plasma membrane  cell cortex  fatty acid metabolic process  neutral lipid metabolic process  phospholipid metabolic process  apoptotic process  activation of cysteine-type endopeptidase activity involved in apoptotic process  mitochondrial membrane organization  aging  microtubule binding  synaptic vesicle  ferrous iron binding  zinc ion binding  adult locomotory behavior  response to iron(II) ion  regulation of phospholipase activity  negative regulation of platelet-derived growth factor receptor signaling pathway  regulation of glutamate secretion  regulation of dopamine secretion  actin cytoskeleton  membrane  inclusion body  oxidoreductase activity  kinesin binding  protein domain specific binding  cell junction  axon  growth cone  Hsp70 protein binding  platelet alpha granule membrane  negative regulation of microtubule polymerization  receptor internalization  protein destabilization  response to magnesium ion  negative regulation of transporter activity  response to lipopolysaccharide  negative regulation of monooxygenase activity  positive regulation of peptidyl-serine phosphorylation  response to interferon-gamma  cellular response to oxidative stress  negative regulation of histone acetylation  regulation of locomotion  histone binding  dopamine biosynthetic process  mitochondrial ATP synthesis coupled electron transport  identical protein binding  identical protein binding  alpha-tubulin binding  neuronal cell body  cysteine-type endopeptidase inhibitor activity involved in apoptotic process  regulation of macrophage activation  positive regulation of apoptotic process  negative regulation of apoptotic process  negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  terminal bouton  phospholipase binding  negative regulation of neuron apoptotic process  transcription regulatory region DNA binding  cellular protein metabolic process  cellular response to fibroblast growth factor stimulus  positive regulation of endocytosis  negative regulation of exocytosis  negative regulation of dopamine metabolic process  protein N-terminus binding  behavioral response to cocaine  tau protein binding  regulation of long-term neuronal synaptic plasticity  perinuclear region of cytoplasm  beta-tubulin binding  synaptic vesicle endocytosis  synaptic vesicle transport  positive regulation of inflammatory response  synapse organization  regulation of acyl-CoA biosynthetic process  phosphoprotein binding  positive regulation of release of sequestered calcium ion into cytosol  dopamine uptake involved in synaptic transmission  negative regulation of dopamine uptake involved in synaptic transmission  negative regulation of serotonin uptake  negative regulation of norepinephrine uptake  calcium ion homeostasis  oxidation-reduction process  excitatory postsynaptic potential  long-term synaptic potentiation  positive regulation of inositol phosphate biosynthetic process  phospholipase D inhibitor activity  negative regulation of thrombin-activated receptor signaling pathway  response to interleukin-1  dynein complex binding  cellular response to copper ion  cellular response to epinephrine stimulus  positive regulation of protein serine/threonine kinase activity  supramolecular fiber organization  postsynapse  supramolecular fiber  negative regulation of neuron death  positive regulation of neuron death  negative regulation of mitochondrial electron transport, NADH to ubiquinone  cuprous ion binding  positive regulation of glutathione peroxidase activity  positive regulation of hydrogen peroxide catabolic process  regulation of synaptic vesicle recycling  regulation of reactive oxygen species biosynthetic process  negative regulation of chaperone-mediated autophagy  regulation of presynapse assembly  
Ontology : EGO-EBInegative regulation of transcription by RNA polymerase II  magnesium ion binding  microglial cell activation  positive regulation of receptor recycling  negative regulation of protein phosphorylation  positive regulation of neurotransmitter secretion  fatty acid binding  copper ion binding  calcium ion binding  protein binding  phospholipid binding  extracellular region  extracellular region  extracellular space  nucleus  nuclear outer membrane  cytoplasm  mitochondrion  mitochondrial respiratory chain complex I  lysosome  rough endoplasmic reticulum  Golgi apparatus  cytosol  cytosol  ribosome  plasma membrane  cell cortex  fatty acid metabolic process  neutral lipid metabolic process  phospholipid metabolic process  apoptotic process  activation of cysteine-type endopeptidase activity involved in apoptotic process  mitochondrial membrane organization  aging  microtubule binding  synaptic vesicle  ferrous iron binding  zinc ion binding  adult locomotory behavior  response to iron(II) ion  regulation of phospholipase activity  negative regulation of platelet-derived growth factor receptor signaling pathway  regulation of glutamate secretion  regulation of dopamine secretion  actin cytoskeleton  membrane  inclusion body  oxidoreductase activity  kinesin binding  protein domain specific binding  cell junction  axon  growth cone  Hsp70 protein binding  platelet alpha granule membrane  negative regulation of microtubule polymerization  receptor internalization  protein destabilization  response to magnesium ion  negative regulation of transporter activity  response to lipopolysaccharide  negative regulation of monooxygenase activity  positive regulation of peptidyl-serine phosphorylation  response to interferon-gamma  cellular response to oxidative stress  negative regulation of histone acetylation  regulation of locomotion  histone binding  dopamine biosynthetic process  mitochondrial ATP synthesis coupled electron transport  identical protein binding  identical protein binding  alpha-tubulin binding  neuronal cell body  cysteine-type endopeptidase inhibitor activity involved in apoptotic process  regulation of macrophage activation  positive regulation of apoptotic process  negative regulation of apoptotic process  negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  terminal bouton  phospholipase binding  negative regulation of neuron apoptotic process  transcription regulatory region DNA binding  cellular protein metabolic process  cellular response to fibroblast growth factor stimulus  positive regulation of endocytosis  negative regulation of exocytosis  negative regulation of dopamine metabolic process  protein N-terminus binding  behavioral response to cocaine  tau protein binding  regulation of long-term neuronal synaptic plasticity  perinuclear region of cytoplasm  beta-tubulin binding  synaptic vesicle endocytosis  synaptic vesicle transport  positive regulation of inflammatory response  synapse organization  regulation of acyl-CoA biosynthetic process  phosphoprotein binding  positive regulation of release of sequestered calcium ion into cytosol  dopamine uptake involved in synaptic transmission  negative regulation of dopamine uptake involved in synaptic transmission  negative regulation of serotonin uptake  negative regulation of norepinephrine uptake  calcium ion homeostasis  oxidation-reduction process  excitatory postsynaptic potential  long-term synaptic potentiation  positive regulation of inositol phosphate biosynthetic process  phospholipase D inhibitor activity  negative regulation of thrombin-activated receptor signaling pathway  response to interleukin-1  dynein complex binding  cellular response to copper ion  cellular response to epinephrine stimulus  positive regulation of protein serine/threonine kinase activity  supramolecular fiber organization  postsynapse  supramolecular fiber  negative regulation of neuron death  positive regulation of neuron death  negative regulation of mitochondrial electron transport, NADH to ubiquinone  cuprous ion binding  positive regulation of glutathione peroxidase activity  positive regulation of hydrogen peroxide catabolic process  regulation of synaptic vesicle recycling  regulation of reactive oxygen species biosynthetic process  negative regulation of chaperone-mediated autophagy  regulation of presynapse assembly  
Pathways : BIOCARTAAlpha-synuclein and Parkin-mediated proteolysis in Parkinson's disease [Genes]    Role of Parkin in the Ubiquitin-Proteasomal Pathway [Genes]   
Pathways : KEGGParkinson's disease    Neurodegenerative Disorders    Alzheimer's disease   
NDEx NetworkSNCA
Atlas of Cancer Signalling NetworkSNCA
Wikipedia pathwaysSNCA
Orthology - Evolution
OrthoDB6622
GeneTree (enSembl)ENSG00000145335
Phylogenetic Trees/Animal Genes : TreeFamSNCA
HOVERGENP37840
HOGENOMP37840
Homologs : HomoloGeneSNCA
Homology/Alignments : Family Browser (UCSC)SNCA
Gene fusions - Rearrangements
Fusion : QuiverSNCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNCA [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNCA
dbVarSNCA
ClinVarSNCA
1000_GenomesSNCA 
Exome Variant ServerSNCA
ExAC (Exome Aggregation Consortium)ENSG00000145335
GNOMAD BrowserENSG00000145335
Genetic variants : HAPMAP6622
Genomic Variants (DGV)SNCA [DGVbeta]
DECIPHERSNCA [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNCA 
Mutations
ICGC Data PortalSNCA 
TCGA Data PortalSNCA 
Broad Tumor PortalSNCA
OASIS PortalSNCA [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNCA  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNCA
LOVD (Leiden Open Variation Database)Parkinson's disease Mutation Database
BioMutasearch SNCA
DgiDB (Drug Gene Interaction Database)SNCA
DoCM (Curated mutations)SNCA (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNCA (select a term)
intoGenSNCA
Cancer3DSNCA(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM127750    163890    168601    605543   
Orphanet17928    932    23022   
DisGeNETSNCA
MedgenSNCA
Genetic Testing Registry SNCA
NextProtP37840 [Medical]
TSGene6622
GENETestsSNCA
Target ValidationSNCA
Huge Navigator SNCA [HugePedia]
snp3D : Map Gene to Disease6622
BioCentury BCIQSNCA
ClinGenSNCA
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6622
Chemical/Pharm GKB GenePA35986
Clinical trialSNCA
Miscellaneous
canSAR (ICR)SNCA (select the gene name)
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNCA
EVEXSNCA
GoPubMedSNCA
iHOPSNCA
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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