Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SNCA (synuclein alpha)

Identity

Other namesNACP
PARK1
PARK4
PD1
HGNC (Hugo) SNCA
LocusID (NCBI) 6622
Atlas_Id 46121
Location 4q22.1
Location_base_pair Starts at 90645250 and ends at 90758350 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
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
GeneCards (Weizmann)SNCA
Ensembl hg19 (Hinxton)ENSG00000145335 [Gene_View]  chr4:90645250-90758350 [Contig_View]  SNCA [Vega]
Ensembl hg38 (Hinxton)ENSG00000145335 [Gene_View]  chr4:90645250-90758350 [Contig_View]  SNCA [Vega]
ICGC DataPortalENSG00000145335
TCGA cBioPortalSNCA
AceView (NCBI)SNCA
Genatlas (Paris)SNCA
WikiGenes6622
SOURCE (Princeton)SNCA
Genomic and cartography
GoldenPath hg19 (UCSC)SNCA  -     chr4:90645250-90758350 -  4q22.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SNCA  -     4q22.1   [Description]    (hg38-Dec_2013)
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)NC_000004 NC_018915 NG_011851 NT_016354 NW_004929320
Consensus coding sequences : CCDS (NCBI)SNCA
Cluster EST : UnigeneHs.21374 [ NCBI ]
CGAP (NCI)Hs.21374
Alternative Splicing : Fast-db (Paris)GSHG0023405
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]
BioGPS (Tissue expression)6622
Protein : pattern, domain, 3D structure
UniProt/SwissProtP37840 (Uniprot)
NextProtP37840  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP37840
Splice isoforms : SwissVarP37840 (Swissvar)
PhosPhoSitePlusP37840
Domains : Interpro (EBI)Synuclein    Synuclein_alpha   
Domain families : Pfam (Sanger)Synuclein (PF01387)   
Domain families : Pfam (NCBI)pfam01387   
DMDM Disease mutations6622
Blocks (Seattle)SNCA
PDB (SRS)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (PDBSum)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (IMB)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
PDB (RSDB)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
Structural Biology KnowledgeBase1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
SCOP (Structural Classification of Proteins)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
CATH (Classification of proteins structures)1XQ8    2JN5    2KKW    2M55    2X6M    3Q25    3Q26    3Q27    3Q28    3Q29    4BXL    4R0U    4R0W    4RIK    4RIL    4ZNN    5CRW   
SuperfamilyP37840
Human Protein AtlasENSG00000145335
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 from RNA polymerase II promoter  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  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  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  response to drug  mitochondrial ATP synthesis coupled electron transport  identical protein binding  identical protein binding  alpha-tubulin binding  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  fibril  extracellular fibril organization  phospholipase binding  negative regulation of neuron apoptotic process  transcription regulatory region DNA binding  cellular protein metabolic process  cellular response to fibroblast growth factor stimulus  dynein binding  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  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 receptor signaling pathway  response to interleukin-1  cellular response to copper ion  cellular response to epinephrine stimulus  positive regulation of protein serine/threonine kinase activity  postsynapse  negative regulation of neuron death  negative regulation of mitochondrial electron transport, NADH to ubiquinone  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  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  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  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  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  response to drug  mitochondrial ATP synthesis coupled electron transport  identical protein binding  identical protein binding  alpha-tubulin binding  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  fibril  extracellular fibril organization  phospholipase binding  negative regulation of neuron apoptotic process  transcription regulatory region DNA binding  cellular protein metabolic process  cellular response to fibroblast growth factor stimulus  dynein binding  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  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 receptor signaling pathway  response to interleukin-1  cellular response to copper ion  cellular response to epinephrine stimulus  positive regulation of protein serine/threonine kinase activity  postsynapse  negative regulation of neuron death  negative regulation of mitochondrial electron transport, NADH to ubiquinone  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  
Pathways : BIOCARTAAlpha-synuclein and Parkin-mediated proteolysis in Parkinson's disease [Genes]    Role of Parkin in the Ubiquitin-Proteasomal Pathway [Genes]   
Pathways : KEGGAlzheimer's disease    Parkinson's disease   
NDEx Network
Atlas of Cancer Signalling NetworkSNCA
Wikipedia pathwaysSNCA
Orthology - Evolution
OrthoDB6622
GeneTree (enSembl)ENSG00000145335
Phylogenetic Trees/Animal Genes : TreeFamSNCA
Homologs : HomoloGeneSNCA
Homology/Alignments : Family Browser (UCSC)SNCA
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSNCA [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNCA
dbVarSNCA
ClinVarSNCA
1000_GenomesSNCA 
Exome Variant ServerSNCA
ExAC (Exome Aggregation Consortium)SNCA (select the gene name)
SNP (GeneSNP Utah)SNCA
SNP : HGBaseSNCA
Genetic variants : HAPMAPSNCA
Genomic Variants (DGV)SNCA [DGVbeta]
Mutations
ICGC Data PortalSNCA 
TCGA Data PortalSNCA 
Broad Tumor PortalSNCA
OASIS PortalSNCA [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNCA 
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)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
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)4:90645250-90758350
CONAN: Copy Number AnalysisSNCA 
Mutations and Diseases : HGMDSNCA
OMIM127750    163890    168601    605543   
MedgenSNCA
Genetic Testing Registry SNCA
NextProtP37840 [Medical]
TSGene6622
GENETestsSNCA
Huge Navigator SNCA [HugePedia]  SNCA [HugeCancerGEM]
snp3D : Map Gene to Disease6622
BioCentury BCIQSNCA
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
GoPubMedSNCA
iHOPSNCA
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Apr 16 18:05:05 CEST 2016

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