Aliases for SYNPR Gene

Aliases for SYNPR Gene

  • Synaptoporin 2 3 4 5
  • SPO 3

External Ids for SYNPR Gene

Previous GeneCards Identifiers for SYNPR Gene

  • GC00U991103
  • GC03P062831
  • GC03P063118
  • GC03P063386
  • GC03P063404

Summaries for SYNPR Gene

GeneCards Summary for SYNPR Gene

SYNPR (Synaptoporin) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include transporter activity. An important paralog of this gene is SYP.

UniProtKB/Swiss-Prot Summary for SYNPR Gene

  • Intrinsic membrane protein of small synaptic vesicles. Probable vesicular channel protein (By similarity).

Gene Wiki entry for SYNPR Gene

Additional gene information for SYNPR Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SYNPR Gene

Genomics for SYNPR Gene

GeneHancer (GH) Regulatory Elements for SYNPR Gene

Promoters and enhancers for SYNPR 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
GH03J063278 Promoter 1 EPDnew Ensembl 500.2 +78.1 78091 0.6 EZH2 SUZ12 SP3 GLIS2 SREBF1 RBBP5 SYNPR lnc-CADPS-1 piR-57195-147
GH03J063444 Promoter/Enhancer 0.8 EPDnew Ensembl 500.1 +243.6 243592 5.2 NONO SMARCA4 SP1 HSF1 NANOG SYNPR RNA5SP134 SYNPR-AS1 ATXN7 piR-36564-011
GH03J063343 Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas 5.4 +143.9 143892 2.6 LARP7 JUND FOS ZNF639 REST TRIM28 ATF2 MXI1 POLR2A OSR2 SYNPR piR-36564-011 RNA5SP134
GH03J063576 Enhancer 0.9 Ensembl ENCODE 5.5 +377.0 376995 2 ZNF217 ZFX CUX1 GATAD2B CTBP1 NEUROD1 ELF1 FOXA1 MYC MAZ RNA5SP134 SYNPR-AS1 SNTN SYNPR piR-57460-495 HSALNG0026533
GH03J063583 Enhancer 0.6 Ensembl 5.5 +383.5 383492 2.2 GABPA ZNF395 CUX1 PAX8 NR2F6 TEAD2 SOX5 PYGO2 CAVIN1 ZNF639 SNTN SYNPR HSALNG0026533 piR-57460-495 SYNPR-AS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SYNPR on UCSC Golden Path with GeneCards custom track

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

Top Transcription factor binding sites by QIAGEN in the SYNPR gene promoter:
  • AP-4
  • FOXC1
  • GATA-6
  • HOXA3
  • Lmo2
  • Nkx2-5
  • Nkx5-1
  • Olf-1
  • POU6F1 (c2)
  • STAT5B

Genomic Locations for SYNPR Gene

Genomic Locations for SYNPR Gene
chr3:63,200,409-63,616,924
(GRCh38/hg38)
Size:
416,516 bases
Orientation:
Plus strand
chr3:63,213,991-63,602,597
(GRCh37/hg19)
Size:
388,607 bases
Orientation:
Plus strand

Genomic View for SYNPR Gene

Genes around SYNPR on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SYNPR Gene

Proteins for SYNPR Gene

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

    Protein Symbol:
    Q8TBG9-SYNPR_HUMAN
    Recommended name:
    Synaptoporin
    Protein Accession:
    Q8TBG9
    Secondary Accessions:
    • B2R675
    • G5E9W4

    Protein attributes for SYNPR Gene

    Size:
    265 amino acids
    Molecular mass:
    29166 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SYNPR Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYNPR Gene

Post-translational modifications for SYNPR Gene

  • Glycosylation at Asn33 and Asn38
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SYNPR Gene

Domains & Families for SYNPR Gene

Gene Families for SYNPR Gene

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

Protein Domains for SYNPR Gene

Blocks:
  • Marvel
  • Synaptophysin/synaptoporin
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYNPR Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ16439 fis, clone BRAMY2046109, highly similar to Synaptoporin (B3KVD8_HUMAN)
  • Synaptoporin (SYNPR_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8TBG9

UniProtKB/Swiss-Prot:

SYNPR_HUMAN :
  • Belongs to the synaptophysin/synaptobrevin family.
Family:
  • Belongs to the synaptophysin/synaptobrevin family.
genes like me logo Genes that share domains with SYNPR: view

Function for SYNPR Gene

Molecular function for SYNPR Gene

UniProtKB/Swiss-Prot Function:
Intrinsic membrane protein of small synaptic vesicles. Probable vesicular channel protein (By similarity).

Phenotypes From GWAS Catalog for SYNPR Gene

Gene Ontology (GO) - Molecular Function for SYNPR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0017075 syntaxin-1 binding IBA 21873635
genes like me logo Genes that share ontologies with SYNPR: view
genes like me logo Genes that share phenotypes with SYNPR: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SYNPR

CRISPR Products

Inhibitory RNA Products

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

Clone Products

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

Localization for SYNPR Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNPR Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Multi-pass membrane protein. Cell junction, synapse, synaptosome.

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 SYNPR gene
Compartment Confidence
plasma membrane 3
extracellular 1
cytoskeleton 1
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
endosome 1
golgi apparatus 1
lysosome 0

Gene Ontology (GO) - Cellular Components for SYNPR 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:0030285 integral component of synaptic vesicle membrane IEA --
genes like me logo Genes that share ontologies with SYNPR: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYNPR Gene

Pathways & Interactions for SYNPR Gene

PathCards logo

SuperPathways for SYNPR Gene

No Data Available

Gene Ontology (GO) - Biological Process for SYNPR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0048168 regulation of neuronal synaptic plasticity IEA --
genes like me logo Genes that share ontologies with SYNPR: view

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

Drugs & Compounds for SYNPR Gene

No Compound Related Data Available

Transcripts for SYNPR Gene

mRNA/cDNA for SYNPR Gene

2 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
15 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 SYNPR

Clone Products

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

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

Relevant External Links for SYNPR Gene

GeneLoc Exon Structure for
SYNPR

Expression for SYNPR Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x13.0), Brain - Caudate (basal ganglia) (x8.1), Brain - Putamen (basal ganglia) (x6.8), and Brain - Cerebellar Hemisphere (x4.6).

Protein differential expression in normal tissues from HIPED for SYNPR Gene

This gene is overexpressed in Retina (40.0), Brain (18.7), and Frontal cortex (8.4).

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



Protein tissue co-expression partners for SYNPR Gene

- Elite partner

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

SOURCE GeneReport for Unigene cluster for SYNPR Gene:

Hs.648668

Evidence on tissue expression from TISSUES for SYNPR Gene

  • Nervous system(5)
  • Eye(4.3)
genes like me logo Genes that share expression patterns with SYNPR: view

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

Orthologs for SYNPR Gene

This gene was present in the common ancestor of animals.

Orthologs for SYNPR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYNPR 31 30
  • 99.53 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SYNPR 31 30
  • 92.16 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SYNPR 31 30
  • 90.79 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Synpr 17 31 30
  • 89.47 (n)
rat
(Rattus norvegicus)
Mammalia Synpr 30
  • 89.36 (n)
oppossum
(Monodelphis domestica)
Mammalia SYNPR 31
  • 83 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYNPR 31
  • 83 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYNPR 31 30
  • 77.39 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SYNPR 31
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia synpr 30
  • 76.38 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC558290 30
  • 66.31 (n)
SYNPR (1 of 2) 31
  • 62 (a)
OneToMany
synpr 31
  • 49 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea sph-1 31
  • 25 (a)
OneToMany
Species where no ortholog for SYNPR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 SYNPR Gene

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

Paralogs for SYNPR Gene

Paralogs for SYNPR Gene

(4) SIMAP similar genes for SYNPR Gene using alignment to 8 proteins:

  • SYNPR_HUMAN
  • B3KVD8_HUMAN
  • C9J0A2_HUMAN
  • C9J976_HUMAN
  • F8WDB8_HUMAN
  • F8WDF9_HUMAN
  • F8WE43_HUMAN
  • F8WF23_HUMAN
genes like me logo Genes that share paralogs with SYNPR: view

Variants for SYNPR Gene

Additional dbSNP identifiers (rs#s) for SYNPR Gene

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

Variant ID Type Subtype PubMed ID
dgv8349n54 CNV loss 21841781
dgv8350n54 CNV loss 21841781
dgv8351n54 CNV loss 21841781
esv1548229 CNV insertion 17803354
esv1696258 CNV deletion 17803354
esv23041 CNV loss 19812545
esv2422509 CNV deletion 17116639
esv25050 CNV loss 19812545
esv3306975 CNV mobile element insertion 20981092
esv3308906 CNV mobile element insertion 20981092
esv3349042 CNV insertion 20981092
esv3399912 CNV insertion 20981092
esv3596390 CNV loss 21293372
esv3596393 CNV gain 21293372
nsv1008751 CNV gain 25217958
nsv1010299 CNV loss 25217958
nsv3848 CNV insertion 18451855
nsv474196 CNV novel sequence insertion 20440878
nsv478243 CNV novel sequence insertion 20440878
nsv590448 CNV loss 21841781
nsv590458 CNV loss 21841781
nsv834716 CNV loss 17160897
nsv956297 CNV deletion 24416366
nsv963326 CNV duplication 23825009

Variation tolerance for SYNPR Gene

Residual Variation Intolerance Score: 37.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.89; 18.52% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYNPR Gene

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

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SYNPR Gene

Disorders for SYNPR Gene

Additional Disease Information for SYNPR

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

No disorders were found for SYNPR Gene.

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

Publications for SYNPR Gene

  1. Cloning and sequence analysis of the human cDNA encoding the synaptoporin (delta), a highly conservative synaptic vesicle protein. (PMID: 12974474) Dai J … Mao Y (Molecular biology reports 2003) 2 3 23 54
  2. Expression of the synaptophysin gene family is not restricted to neuronal and neuroendocrine differentiation in rat and human. (PMID: 8034131) Leube RE (Differentiation; research in biological diversity 1994) 2 3 23 54
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41 54
  4. 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) 3 4 54
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54

Products for SYNPR Gene

Sources for SYNPR Gene