This gene encodes an integral membrane protein. The gene belongs to the synaptogyrin gene family. Like other members of the family the protein contains four transmembrane regions. The exact function of this protein is unclear. [provided by RefSeq, Jul 2008] See more...

Aliases for SYNGR4 Gene

Aliases for SYNGR4 Gene

  • Synaptogyrin 4 2 3 5
  • Synaptogyrin-4 3 4
  • Testis Tissue Sperm-Binding Protein Li 72n 3
  • SYNGR4 5

External Ids for SYNGR4 Gene

Previous GeneCards Identifiers for SYNGR4 Gene

  • GC19P049513
  • GC19P049235
  • GC19P053543
  • GC19P053559
  • GC19P048867
  • GC19P045248

Summaries for SYNGR4 Gene

Entrez Gene Summary for SYNGR4 Gene

  • This gene encodes an integral membrane protein. The gene belongs to the synaptogyrin gene family. Like other members of the family the protein contains four transmembrane regions. The exact function of this protein is unclear. [provided by RefSeq, Jul 2008]

GeneCards Summary for SYNGR4 Gene

SYNGR4 (Synaptogyrin 4) is a Protein Coding gene. An important paralog of this gene is SYNGR3.

Additional gene information for SYNGR4 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SYNGR4 Gene

Genomics for SYNGR4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SYNGR4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J048362 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 -0.3 -274 2.7 BRCA1 SP1 HNRNPL CREB1 TEAD4 PRDM10 ZNF629 SIX5 LEF1 IKZF1 TMEM143 SYNGR4 lnc-KDELR1-1 CCDC114 EHD2 ENSG00000268746 EMP3
GH19J048328 Promoter/Enhancer 2.3 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 13.8 -32.5 -32481 6 SP1 CREB1 CTCF HNRNPL PRDM10 ZNF629 ZNF512 SIX5 LEF1 IKZF1 BICRA GRWD1 TMEM143 SNRNP70 NOP53-AS1 CA11 SYNGR4 NOP53 KDELR1 RPL18
GH19J048253 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 11.2 -106.8 -106815 7.1 SP1 GATAD2A CTCF PRDM10 ZNF629 REST TFE3 SIX5 LEF1 IKZF1 CARD8-AS1 CARD8 lnc-CCDC114-2 BICRA NOP53-AS1 GRWD1 SNRNP70 KDELR1 NOP53 RPL18
GH19J048145 Enhancer 0.5 FANTOM5 Ensembl 43.7 -218.9 -218866 2 RFX1 ZFP36 ENSG00000269321 LOC107985293 SPACA4 SYNGR4 PLA2G4C LIG1
GH19J048203 Promoter/Enhancer 1.7 Ensembl ENCODE CraniofacialAtlas 10.6 -159.7 -159693 2.9 SP1 REST RFX1 IKZF1 POLR2A ZNF692 BACH1 ZHX2 LARP7 STAT3 ENSG00000268583 lnc-CARD8-2 GRWD1 KDELR1 NOP53-AS1 CARD8 NOP53 CCDC114 BICRA RPL18
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SYNGR4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SYNGR4

Top Transcription factor binding sites by QIAGEN in the SYNGR4 gene promoter:
  • Arnt
  • Meis-1
  • Meis-1a
  • Meis-1b
  • NF-1
  • p53
  • SRF
  • SRF (504 AA)
  • YY1
  • ZID

Genomic Locations for SYNGR4 Gene

Genomic Locations for SYNGR4 Gene
chr19:48,364,267-48,376,377
(GRCh38/hg38)
Size:
12,111 bases
Orientation:
Plus strand
chr19:48,867,651-48,879,634
(GRCh37/hg19)
Size:
11,984 bases
Orientation:
Plus strand

Genomic View for SYNGR4 Gene

Genes around SYNGR4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYNGR4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYNGR4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNGR4 Gene

Proteins for SYNGR4 Gene

  • Protein details for SYNGR4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95473-SNG4_HUMAN
    Recommended name:
    Synaptogyrin-4
    Protein Accession:
    O95473
    Secondary Accessions:
    • Q3KP58

    Protein attributes for SYNGR4 Gene

    Size:
    234 amino acids
    Molecular mass:
    25820 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SYNGR4 Gene

Post-translational modifications for SYNGR4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYNGR4 Gene

Antibody Products

  • Boster Bio Antibodies for SYNGR4

No data available for DME Specific Peptides for SYNGR4 Gene

Domains & Families for SYNGR4 Gene

Gene Families for SYNGR4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for SYNGR4 Gene

InterPro:
Blocks:
  • Marvel
ProtoNet:

Suggested Antigen Peptide Sequences for SYNGR4 Gene

GenScript: Design optimal peptide antigens:
  • Synaptogyrin-4 (SNG4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O95473

UniProtKB/Swiss-Prot:

SNG4_HUMAN :
  • Belongs to the synaptogyrin family.
Family:
  • Belongs to the synaptogyrin family.
genes like me logo Genes that share domains with SYNGR4: view

Function for SYNGR4 Gene

Phenotypes From GWAS Catalog for SYNGR4 Gene

genes like me logo Genes that share phenotypes with SYNGR4: view

Animal Models for SYNGR4 Gene

MGI Knock Outs for SYNGR4:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYNGR4

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SYNGR4 Gene

Localization for SYNGR4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNGR4 Gene

Membrane. Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
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 SYNGR4 gene
Compartment Confidence
plasma membrane 3
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SYNGR4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030672 synaptic vesicle membrane IBA 21873635
GO:0031594 neuromuscular junction IBA 21873635
genes like me logo Genes that share ontologies with SYNGR4: view

Pathways & Interactions for SYNGR4 Gene

PathCards logo

SuperPathways for SYNGR4 Gene

No Data Available

Interacting Proteins for SYNGR4 Gene

Gene Ontology (GO) - Biological Process for SYNGR4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SYNGR4 Gene

Drugs & Compounds for SYNGR4 Gene

No Compound Related Data Available

Transcripts for SYNGR4 Gene

mRNA/cDNA for SYNGR4 Gene

1 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYNGR4

Alternative Splicing Database (ASD) splice patterns (SP) for SYNGR4 Gene

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

Relevant External Links for SYNGR4 Gene

GeneLoc Exon Structure for
SYNGR4

Expression for SYNGR4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SYNGR4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYNGR4 Gene

This gene is overexpressed in Testis (x41.5).

Protein differential expression in normal tissues from HIPED for SYNGR4 Gene

This gene is overexpressed in Ovary (36.0) and Testis (33.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SYNGR4 Gene



Protein tissue co-expression partners for SYNGR4 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SYNGR4

SOURCE GeneReport for Unigene cluster for SYNGR4 Gene:

Hs.408333
genes like me logo Genes that share expression patterns with SYNGR4: view

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYNGR4 Gene

Orthologs for SYNGR4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYNGR4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SYNGR4 30 31
  • 98.17 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SYNGR4 30 31
  • 83.33 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Syngr4 30
  • 80.2 (n)
Mouse
(Mus musculus)
Mammalia Syngr4 30 17 31
  • 79.97 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SYNGR4 30 31
  • 77.88 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SYNGR4 31
  • 62 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SYNGR4 31
  • 46 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta synaptogyrin 31
  • 19 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea sng-1 31
  • 19 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 25 (a)
OneToMany
Species where no ortholog for SYNGR4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • Chicken (Gallus gallus)
  • 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)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Zebrafish (Danio rerio)

Evolution for SYNGR4 Gene

ENSEMBL:
Gene Tree for SYNGR4 (if available)
TreeFam:
Gene Tree for SYNGR4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SYNGR4: view image

Paralogs for SYNGR4 Gene

Paralogs for SYNGR4 Gene

(3) SIMAP similar genes for SYNGR4 Gene using alignment to 4 proteins:

  • SNG4_HUMAN
  • M0QXW6_HUMAN
  • M0QYL0_HUMAN
  • M0R1Y8_HUMAN
genes like me logo Genes that share paralogs with SYNGR4: view

Variants for SYNGR4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SYNGR4 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs919804 - p.Arg27Trp

Additional dbSNP identifiers (rs#s) for SYNGR4 Gene

Structural Variations from Database of Genomic Variants (DGV) for SYNGR4 Gene

Variant ID Type Subtype PubMed ID
dgv1793n106 CNV deletion 24896259
esv2718675 CNV deletion 23290073
esv34181 CNV loss 18971310
esv3644586 CNV loss 21293372
esv3893229 CNV loss 25118596
nsv833854 CNV loss 17160897
nsv9739 CNV gain+loss 18304495

Variation tolerance for SYNGR4 Gene

Residual Variation Intolerance Score: 79.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.12; 61.25% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYNGR4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYNGR4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYNGR4 Gene

Disorders for SYNGR4 Gene

No disorders were found for SYNGR4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYNGR4 Gene

Publications for SYNGR4 Gene

  1. A Novel GLP1 Receptor Interacting Protein ATP6ap2 Regulates Insulin Secretion in Pancreatic Beta Cells. (PMID: 26272612) Dai FF … Wheeler MB (The Journal of biological chemistry 2015) 3
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3
  5. A transcript map of the chromosome 19q-arm glioma tumor suppressor region. (PMID: 10708517) Smith JS … Jenkins RB (Genomics 2000) 3

Products for SYNGR4 Gene

  • Signalway ELISA kits for SYNGR4

Sources for SYNGR4 Gene