Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYT4 (synaptotagmin 4)

Identity

Alias_namessynaptotagmin IV
Alias_symbol (synonym)KIAA1342
HsT1192
Other alias
HGNC (Hugo) SYT4
LocusID (NCBI) 6860
Atlas_Id 56025
Location 18q12.3  [Link to chromosome band 18q12]
Location_base_pair Starts at 43267892 and ends at 43277650 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
SSX1 (Xp11.23) / SYT4 (18q12.3)SYT4 (18q12.3) / ATP2A2 (12q24.11)

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)SYT4   11512
Cards
Entrez_Gene (NCBI)SYT4  6860  synaptotagmin 4
AliasesHsT1192
GeneCards (Weizmann)SYT4
Ensembl hg19 (Hinxton)ENSG00000132872 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000132872 [Gene_View]  chr18:43267892-43277650 [Contig_View]  SYT4 [Vega]
ICGC DataPortalENSG00000132872
TCGA cBioPortalSYT4
AceView (NCBI)SYT4
Genatlas (Paris)SYT4
WikiGenes6860
SOURCE (Princeton)SYT4
Genetics Home Reference (NIH)SYT4
Genomic and cartography
GoldenPath hg38 (UCSC)SYT4  -     chr18:43267892-43277650 -  18q12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYT4  -     18q12.3   [Description]    (hg19-Feb_2009)
EnsemblSYT4 - 18q12.3 [CytoView hg19]  SYT4 - 18q12.3 [CytoView hg38]
Mapping of homologs : NCBISYT4 [Mapview hg19]  SYT4 [Mapview hg38]
OMIM600103   
Gene and transcription
Genbank (Entrez)AB037763 AF299075 AI912792 AK291154 AK293791
RefSeq transcript (Entrez)NM_020783
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYT4
Cluster EST : UnigeneHs.8059 [ NCBI ]
CGAP (NCI)Hs.8059
Alternative Splicing GalleryENSG00000132872
Gene ExpressionSYT4 [ NCBI-GEO ]   SYT4 [ EBI - ARRAY_EXPRESS ]   SYT4 [ SEEK ]   SYT4 [ MEM ]
Gene Expression Viewer (FireBrowse)SYT4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6860
GTEX Portal (Tissue expression)SYT4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2B2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2B2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2B2
Splice isoforms : SwissVarQ9H2B2
PhosPhoSitePlusQ9H2B2
Domaine pattern : Prosite (Expaxy)C2 (PS50004)   
Domains : Interpro (EBI)C2_dom    Synaptotagmin    SYT4   
Domain families : Pfam (Sanger)C2 (PF00168)   
Domain families : Pfam (NCBI)pfam00168   
Domain families : Smart (EMBL)C2 (SM00239)  
Conserved Domain (NCBI)SYT4
DMDM Disease mutations6860
Blocks (Seattle)SYT4
PDB (SRS)1UGK   
PDB (PDBSum)1UGK   
PDB (IMB)1UGK   
PDB (RSDB)1UGK   
Structural Biology KnowledgeBase1UGK   
SCOP (Structural Classification of Proteins)1UGK   
CATH (Classification of proteins structures)1UGK   
SuperfamilyQ9H2B2
Human Protein AtlasENSG00000132872
Peptide AtlasQ9H2B2
HPRD02519
IPIIPI00022735   IPI00908320   IPI00910588   IPI01012684   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2B2
IntAct (EBI)Q9H2B2
FunCoupENSG00000132872
BioGRIDSYT4
STRING (EMBL)SYT4
ZODIACSYT4
Ontologies - Pathways
QuickGOQ9H2B2
Ontology : AmiGOphosphatidylserine binding  calcium ion binding  protein binding  calcium-dependent phospholipid binding  plasma membrane  plasma membrane  vesicle fusion  brain development  memory  synaptic vesicle  positive regulation of glutamate secretion  regulation of dopamine secretion  syntaxin-1 binding  regulation of calcium ion-dependent exocytosis  syntaxin binding  cell junction  regulation of endocytosis  integral component of Golgi membrane  clathrin binding  integral component of synaptic vesicle membrane  syntaxin-3 binding  axon  dendrite  dense core granule  negative regulation of vesicle fusion  dense core granule membrane  negative regulation of catecholamine secretion  protein homodimerization activity  neuronal cell body  intracellular membrane-bounded organelle  neuron projection terminus  negative regulation of calcium ion-dependent exocytosis  positive regulation of calcium ion-dependent exocytosis  negative regulation of neurotransmitter secretion  protein heterodimerization activity  negative regulation of short-term neuronal synaptic plasticity  perinuclear region of cytoplasm  calcium ion-regulated exocytosis of neurotransmitter  negative regulation of protein secretion  vesicle fusion with vesicle  secretory granule maturation  astrocyte projection  positive regulation of dendrite extension  negative regulation of retrograde trans-synaptic signaling by neuropeptide  microvesicle  
Ontology : EGO-EBIphosphatidylserine binding  calcium ion binding  protein binding  calcium-dependent phospholipid binding  plasma membrane  plasma membrane  vesicle fusion  brain development  memory  synaptic vesicle  positive regulation of glutamate secretion  regulation of dopamine secretion  syntaxin-1 binding  regulation of calcium ion-dependent exocytosis  syntaxin binding  cell junction  regulation of endocytosis  integral component of Golgi membrane  clathrin binding  integral component of synaptic vesicle membrane  syntaxin-3 binding  axon  dendrite  dense core granule  negative regulation of vesicle fusion  dense core granule membrane  negative regulation of catecholamine secretion  protein homodimerization activity  neuronal cell body  intracellular membrane-bounded organelle  neuron projection terminus  negative regulation of calcium ion-dependent exocytosis  positive regulation of calcium ion-dependent exocytosis  negative regulation of neurotransmitter secretion  protein heterodimerization activity  negative regulation of short-term neuronal synaptic plasticity  perinuclear region of cytoplasm  calcium ion-regulated exocytosis of neurotransmitter  negative regulation of protein secretion  vesicle fusion with vesicle  secretory granule maturation  astrocyte projection  positive regulation of dendrite extension  negative regulation of retrograde trans-synaptic signaling by neuropeptide  microvesicle  
NDEx NetworkSYT4
Atlas of Cancer Signalling NetworkSYT4
Wikipedia pathwaysSYT4
Orthology - Evolution
OrthoDB6860
GeneTree (enSembl)ENSG00000132872
Phylogenetic Trees/Animal Genes : TreeFamSYT4
HOVERGENQ9H2B2
HOGENOMQ9H2B2
Homologs : HomoloGeneSYT4
Homology/Alignments : Family Browser (UCSC)SYT4
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYT4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYT4
dbVarSYT4
ClinVarSYT4
1000_GenomesSYT4 
Exome Variant ServerSYT4
ExAC (Exome Aggregation Consortium)SYT4 (select the gene name)
Genetic variants : HAPMAP6860
Genomic Variants (DGV)SYT4 [DGVbeta]
DECIPHERSYT4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYT4 
Mutations
ICGC Data PortalSYT4 
TCGA Data PortalSYT4 
Broad Tumor PortalSYT4
OASIS PortalSYT4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYT4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSYT4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SYT4
DgiDB (Drug Gene Interaction Database)SYT4
DoCM (Curated mutations)SYT4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYT4 (select a term)
intoGenSYT4
Cancer3DSYT4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600103   
Orphanet
MedgenSYT4
Genetic Testing Registry SYT4
NextProtQ9H2B2 [Medical]
TSGene6860
GENETestsSYT4
Target ValidationSYT4
Huge Navigator SYT4 [HugePedia]
snp3D : Map Gene to Disease6860
BioCentury BCIQSYT4
ClinGenSYT4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6860
Chemical/Pharm GKB GenePA36293
Clinical trialSYT4
Miscellaneous
canSAR (ICR)SYT4 (select the gene name)
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYT4
EVEXSYT4
GoPubMedSYT4
iHOPSYT4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 14:09:06 CEST 2017

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