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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 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

No data available for 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
GH22F039388 1.5 FANTOM5 Ensembl ENCODE 27.7 +38.9 38940 1.7 HDAC1 ATF1 PKNOX1 DMAP1 KLF7 CREM EGR2 ZNF362 SP3 SP5 SYNGR1 MGAT3 RPL3 MIEF1 CACNA1I CBX7 APOBEC3G APOBEC3D GC22P039386 PIR49666
GH22F039452 1.2 Ensembl ENCODE 27.4 +103.8 103806 3.1 HDAC1 ATF1 PKNOX1 CBX3 TBL1XR1 KLF17 CHAMP1 ZNF121 GATA2 CREM SYNGR1 MGAT3-AS1 MIEF1 ENSG00000225528 MGAT3
GH22F039462 1.6 FANTOM5 Ensembl ENCODE 16.9 +119.3 119315 14.5 HDGF PKNOX1 MLX ZFP64 ARID4B DMAP1 YY1 ZNF143 ZNF207 SP5 ENSG00000272834 SNORD83B TAB1 ENSG00000228274 PRDX3P1 MGAT3 ENSG00000227413 CBY1 SYNGR1 SNORD83A
GH22F039411 0.9 Ensembl ENCODE 29.8 +62.9 62876 3.6 CTCF ZNF654 ZNF384 ZBTB40 RAD21 ZNF316 SMC3 PRDM10 TRIM24 ZNF600 SYNGR1 MGAT3 MIEF1 GC22M041396 GC22P039431
GH22F039308 1.5 FANTOM5 ENCODE 17.6 -39.6 -39592 4.3 PKNOX1 MLX ZFP64 SIN3A FEZF1 ZNF2 ZNF143 FOS ZNF263 PAF1 SYNGR1 APOBEC3A ENSG00000230149 SNORD83B ENSG00000273076 ENSG00000272669 ENSG00000225450 APOBEC3D SNORD83A PRDX3P1
- 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
ENSR00000618400 275 2001 KLF17 ELK1 ETV6 ZNF391 ZNF263 ZBTB11 JUNB CEBPB RAD51 ZNF292

Genomic Location for SYNGR1 Gene

39,349,925 bp from pter
39,385,588 bp from pter
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 Lys 10
  • 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

Protein Domains for SYNGR1 Gene


Suggested Antigen Peptide Sequences for SYNGR1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 MARVEL domain.
  • Belongs to the synaptogyrin family.
  • Contains 1 MARVEL domain.
  • Belongs to the synaptogyrin family.
genes like me logo Genes that share domains with SYNGR1: view

No data available for Gene Families for SYNGR1 Gene

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.

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

  • Taconic Biosciences Mouse Models for SYNGR1

miRNA for SYNGR1 Gene

miRTarBase miRNAs that target SYNGR1

Flow Cytometry 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

Gene Ontology (GO) - Cellular Components for SYNGR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008021 synaptic vesicle IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
GO:0030672 synaptic vesicle membrane IBA --
genes like me logo Genes that share ontologies with SYNGR1: view

Pathways & Interactions for SYNGR1 Gene

SuperPathways for SYNGR1 Gene

SuperPathway Contained pathways
1 Immune System
genes like me logo Genes that share pathways with SYNGR1: view

Pathways by source for SYNGR1 Gene

2 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: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

Transcripts for SYNGR1 Gene

Unigene Clusters for SYNGR1 Gene

Synaptogyrin 1:
Representative Sequences:

Flow Cytometry 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 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:

genes like me logo Genes that share expression patterns with SYNGR1: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt 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 34 16 35
  • 90.56 (n)
(Rattus norvegicus)
Mammalia Syngr1 34
  • 89.95 (n)
(Pan troglodytes)
Mammalia SYNGR1 35
  • 87 (a)
(Bos Taurus)
Mammalia SYNGR1 35
  • 85 (a)
(Canis familiaris)
Mammalia SYNGR1 35
  • 84 (a)
(Ornithorhynchus anatinus)
Mammalia SYNGR1 35
  • 62 (a)
(Gallus gallus)
Aves SYNGR1 34 35
  • 78.3 (n)
(Anolis carolinensis)
Reptilia SYNGR1 35
  • 78 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia syngr1 34
  • 69.12 (n)
(Danio rerio)
Actinopterygii syngr1a 34 35
  • 66.83 (n)
syngr1b 35
  • 52 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011318 34
  • 59.81 (n)
fruit fly
(Drosophila melanogaster)
Insecta synaptogyrin 36 34 35
  • 57.5 (n)
(Caenorhabditis elegans)
Secernentea sng-1 34 35
  • 44.86 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 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
rs1007337 -- 39,385,580(+) ACCAG(C/T)GATTG utr-variant-3-prime
rs1007338 -- 39,385,598(+) GTCAC(C/T)GTGTT downstream-variant-500B
rs1010169 -- 39,382,162(+) Cattc(A/G)tacat utr-variant-3-prime
rs1010170 -- 39,382,322(+) ACAGA(C/T)CCAGA utr-variant-3-prime

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. (Psychiatr. Genet. 2009) 3 22 46 64
  2. Identification of rare mutations of synaptogyrin 1 gene in patients with schizophrenia. (PMID: 17049558) Cheng M.C. … Chen C.H. (J. Psychiatr. Res. 2007) 3 4 22 64
  3. A nonsense mutation in the synaptogyrin 1 gene in a family with schizophrenia. (PMID: 14732601) Verma R. … Brahmachari S.K. (Biol. Psychiatry 2004) 3 22 46 64
  4. Characterization of the human synaptogyrin gene family. (PMID: 9760194) Kedra D. … Dumanski J.P. (Hum. Genet. 1998) 2 3 4 64
  5. No association between bipolar disorder and syngr1 or synapsin II polymorphisms in the Han Chinese population. (PMID: 19665806) Wang Y. … Li S. (Psychiatry Res 2009) 3 46 64

Products for SYNGR1 Gene

Sources for SYNGR1 Gene

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