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Aliases for SYNGR1 Gene

Aliases for SYNGR1 Gene

  • Synaptogyrin 1 2 3 5
  • Synaptogyrin-1 3

External Ids for SYNGR1 Gene

Previous GeneCards Identifiers for SYNGR1 Gene

  • GC22P036360
  • GC22P037989
  • GC22P037988
  • GC22P038070
  • GC22P039745
  • GC22P022711

Summaries for SYNGR1 Gene

Entrez Gene Summary for SYNGR1 Gene

  • This gene encodes an integral membrane protein associated with presynaptic vesicles in neuronal cells. The exact function of this protein is unclear, but studies of a similar murine protein suggest that it functions in synaptic plasticity without being required for synaptic transmission. The gene product belongs to the synaptogyrin gene family. Three alternatively spliced variants encoding three different isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for SYNGR1 Gene

SYNGR1 (Synaptogyrin 1) is a Protein Coding gene. Among its related pathways are Innate Immune System. An important paralog of this gene is SYNGR3.

UniProtKB/Swiss-Prot for SYNGR1 Gene

  • Involved in the regulation of short-term and long-term synaptic plasticity.

Gene Wiki entry for SYNGR1 Gene

Additional gene information for SYNGR1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYNGR1 Gene

Genomics for SYNGR1 Gene

Regulatory Elements for SYNGR1 Gene

Enhancers for SYNGR1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH22H039308 2 FANTOM5 Ensembl ENCODE dbSUPER 17.6 -39.6 -39592 4.3 HDGF PKNOX1 MLX ARNT ZFP64 SIN3A FEZF1 ZNF2 ZNF143 FOS DDX17 RPL3 SYNGR1 APOBEC3A ENSG00000230149 SNORD83B ENSG00000273076 ENSG00000272669 ENSG00000225450 TAB1
GH22H039452 1.5 Ensembl ENCODE dbSUPER 23 +104.0 103952 2.8 PKNOX1 ATF1 TCF12 ZNF121 ZNF766 GATA2 ELK1 CAVIN1 NCOA1 ZNF592 SYNGR1 MGAT3-AS1 MIEF1 MGAT3
GH22H039462 1.8 FANTOM5 Ensembl ENCODE dbSUPER 16.9 +119.3 119349 14.4 HDGF PKNOX1 MLX ARID4B DMAP1 YY1 ZNF143 SP5 REST ZNF592 MGAT3 SYNGR1 ENSG00000230912 MIEF1 RPS19BP1 TAB1 MGAT3-AS1 DDX17
GH22H039281 1.9 FANTOM5 Ensembl ENCODE dbSUPER 15.4 -66.6 -66588 4.3 PKNOX1 MLX ARID4B DMAP1 YY1 SLC30A9 ZNF766 SP5 MXD4 NFYC SYNGR1 RPL3 APOBEC3A ATF4 GC22M042216 ENSG00000224794
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYNGR1 on UCSC Golden Path with GeneCards custom track

Promoters for SYNGR1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000146323 175 1401 HDGF KLF17 ZNF766 ELK1 ZNF391 ATF7 SMARCA5 ZBTB11 CEBPB ZNF398

Genomic Locations for SYNGR1 Gene

Genomic Locations for SYNGR1 Gene
35,664 bases
Plus strand

Genomic View for SYNGR1 Gene

Genes around SYNGR1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYNGR1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYNGR1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNGR1 Gene

Proteins for SYNGR1 Gene

  • Protein details for SYNGR1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • A6NP69
    • A8K0E2
    • O43757
    • O43758
    • Q53Y02
    • Q96J56
    • Q9UGZ4

    Protein attributes for SYNGR1 Gene

    233 amino acids
    Molecular mass:
    25456 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SYNGR1 Gene


neXtProt entry for SYNGR1 Gene

Post-translational modifications for SYNGR1 Gene

  • Ubiquitination at posLast=1010
  • Modification sites at PhosphoSitePlus

Other Protein References for SYNGR1 Gene

No data available for DME Specific Peptides for SYNGR1 Gene

Domains & Families for SYNGR1 Gene

Gene Families for SYNGR1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SYNGR1 Gene


Suggested Antigen Peptide Sequences for SYNGR1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the synaptogyrin family.
  • Belongs to the synaptogyrin family.
genes like me logo Genes that share domains with SYNGR1: view

Function for SYNGR1 Gene

Molecular function for SYNGR1 Gene

GENATLAS Biochemistry:
synaptogyrin,putative vesicle protein,expressed in neurons of the central nervous system,with three alternatively spliced isoforms,SYNGR1a,SYNGR1b,SYNGR1c
UniProtKB/Swiss-Prot Function:
Involved in the regulation of short-term and long-term synaptic plasticity.

Phenotypes From GWAS Catalog for SYNGR1 Gene

Gene Ontology (GO) - Molecular Function for SYNGR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with SYNGR1: view

Phenotypes for SYNGR1 Gene

genes like me logo Genes that share phenotypes with SYNGR1: view

Animal Models for SYNGR1 Gene

MGI Knock Outs for SYNGR1:

Animal Model Products

miRNA for SYNGR1 Gene

miRTarBase miRNAs that target SYNGR1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYNGR1 Gene

Localization for SYNGR1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNGR1 Gene

Membrane; Multi-pass membrane protein. Melanosome. Cell junction, synapse. Note=Identified by mass spectrometry in melanosome fractions from stage I to stage IV.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYNGR1 gene
Compartment Confidence
plasma membrane 5
lysosome 4

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SYNGR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0008021 synaptic vesicle IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with SYNGR1: view

Pathways & Interactions for SYNGR1 Gene

genes like me logo Genes that share pathways with SYNGR1: view

Pathways by source for SYNGR1 Gene

3 Reactome pathways for SYNGR1 Gene

Gene Ontology (GO) - Biological Process for SYNGR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006605 protein targeting IEA --
GO:0043312 neutrophil degranulation TAS --
GO:0045055 regulated exocytosis ISS --
GO:0048169 regulation of long-term neuronal synaptic plasticity ISS --
GO:0048172 regulation of short-term neuronal synaptic plasticity ISS --
genes like me logo Genes that share ontologies with SYNGR1: view

No data available for SIGNOR curated interactions for SYNGR1 Gene

Drugs & Compounds for SYNGR1 Gene

No Compound Related Data Available

Transcripts for SYNGR1 Gene

Unigene Clusters for SYNGR1 Gene

Synaptogyrin 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYNGR1 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8
SP1: - - -
SP2: - - - -
SP3: - - - - - -
SP4: - -
SP5: - - -
SP6: - - -
SP7: - - -

Relevant External Links for SYNGR1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SYNGR1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYNGR1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYNGR1 Gene

This gene is overexpressed in Brain - Cerebellum (x6.0), Brain - Cortex (x5.8), Brain - Cerebellar Hemisphere (x5.2), Brain - Frontal Cortex (BA9) (x4.7), and Brain - Anterior cingulate cortex (BA24) (x4.4).

Protein differential expression in normal tissues from HIPED for SYNGR1 Gene

This gene is overexpressed in Nasal epithelium (20.1), Frontal cortex (19.4), and Retina (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SYNGR1 Gene

Protein tissue co-expression partners for SYNGR1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYNGR1 Gene:


SOURCE GeneReport for Unigene cluster for SYNGR1 Gene:


Evidence on tissue expression from TISSUES for SYNGR1 Gene

  • Nervous system(4.9)
  • Eye(2.2)
genes like me logo Genes that share expression patterns with SYNGR1: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYNGR1 Gene

Orthologs for SYNGR1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYNGR1 Gene

Organism Taxonomy Gene Similarity Type Details
(Mus musculus)
Mammalia Syngr1 33 16 34
  • 90.56 (n)
(Rattus norvegicus)
Mammalia Syngr1 33
  • 89.95 (n)
(Pan troglodytes)
Mammalia SYNGR1 34
  • 87 (a)
(Bos Taurus)
Mammalia SYNGR1 34
  • 85 (a)
(Canis familiaris)
Mammalia SYNGR1 34
  • 84 (a)
(Ornithorhynchus anatinus)
Mammalia SYNGR1 34
  • 62 (a)
(Gallus gallus)
Aves SYNGR1 33 34
  • 78.3 (n)
(Anolis carolinensis)
Reptilia SYNGR1 34
  • 78 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia syngr1 33
  • 69.12 (n)
(Danio rerio)
Actinopterygii syngr1a 33 34
  • 66.83 (n)
syngr1b 34
  • 52 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011318 33
  • 59.81 (n)
fruit fly
(Drosophila melanogaster)
Insecta synaptogyrin 35 33 34
  • 57.5 (n)
(Caenorhabditis elegans)
Secernentea sng-1 33 34
  • 44.86 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 48 (a)
Species where no ortholog for SYNGR1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SYNGR1 Gene

Gene Tree for SYNGR1 (if available)
Gene Tree for SYNGR1 (if available)

Paralogs for SYNGR1 Gene

Paralogs for SYNGR1 Gene

(3) SIMAP similar genes for SYNGR1 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SYNGR1: view

Variants for SYNGR1 Gene

Sequence variations from dbSNP and Humsavar for SYNGR1 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs193920982 Uncertain significance 39,377,595(+) CCTGG(C/T)AGAGC intron-variant
rs1000093534 -- 39,363,708(+) GGACT(G/T)CCTGG intron-variant, upstream-variant-2KB
rs1000187654 -- 39,356,116(+) AGTTG(A/G)AATGC intron-variant
rs1000364175 -- 39,385,267(+) AGCCC(G/T)TGTCG utr-variant-3-prime
rs1000366268 -- 39,369,402(+) CCCCA(C/G)TGTGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYNGR1 Gene

Variant ID Type Subtype PubMed ID
nsv834199 CNV loss 17160897
nsv834198 CNV loss 17160897
nsv817996 CNV gain 17921354
esv3647763 CNV loss 21293372

Variation tolerance for SYNGR1 Gene

Residual Variation Intolerance Score: 28.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.65; 14.00% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYNGR1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYNGR1 Gene

Disorders for SYNGR1 Gene

Relevant External Links for SYNGR1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SYNGR1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYNGR1 Gene

Publications for SYNGR1 Gene

  1. Association study and mutational screening of SYNGR1 as a candidate susceptibility gene for schizophrenia. (PMID: 19641478) Iatropoulos P … Barlati S (Psychiatric genetics 2009) 3 22 45 60
  2. Identification of rare mutations of synaptogyrin 1 gene in patients with schizophrenia. (PMID: 17049558) Cheng MC … Chen CH (Journal of psychiatric research 2007) 3 4 22 60
  3. A nonsense mutation in the synaptogyrin 1 gene in a family with schizophrenia. (PMID: 14732601) Verma R … Brahmachari SK (Biological psychiatry 2004) 3 22 45 60
  4. Characterization of the human synaptogyrin gene family. (PMID: 9760194) Kedra D … Dumanski JP (Human genetics 1998) 2 3 4 60
  5. No association between bipolar disorder and syngr1 or synapsin II polymorphisms in the Han Chinese population. (PMID: 19665806) Wang Y … Li S (Psychiatry research 2009) 3 45 60

Products for SYNGR1 Gene

Sources for SYNGR1 Gene

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