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Aliases for CLSTN3 Gene

Aliases for CLSTN3 Gene

  • Calsyntenin 3 2 3 5
  • Cadherin-Related Family Member 14 2 3
  • Alcadein-Beta 3 4
  • Alc-Beta 3 4
  • Alcadein Beta 3
  • Calsyntenin-3 3
  • KIAA0726 4
  • Alcbeta 3
  • CDHR14 3
  • CSTN3 3
  • CS3 4

External Ids for CLSTN3 Gene

Previous GeneCards Identifiers for CLSTN3 Gene

  • GC12P007242
  • GC12P007418
  • GC12P007174
  • GC12P007282
  • GC12P007095
  • GC12P007130
  • GC12P007210
  • GC12P007267

Summaries for CLSTN3 Gene

GeneCards Summary for CLSTN3 Gene

CLSTN3 (Calsyntenin 3) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is CLSTN1.

UniProtKB/Swiss-Prot for CLSTN3 Gene

  • May modulate calcium-mediated postsynaptic signals. Complex formation with APBA2 and APP, stabilizes APP metabolism and enhances APBA2-mediated suppression of beta-APP40 secretion, due to the retardation of intracellular APP maturation.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLSTN3 Gene

Genomics for CLSTN3 Gene

Regulatory Elements for CLSTN3 Gene

Enhancers for CLSTN3 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
- Elite enhancer/Elite enhancer-gene association

Enhancers around CLSTN3 on UCSC Golden Path with GeneCards custom track

Promoters for CLSTN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for CLSTN3 Gene

Chromosome:
12
Start:
7,129,698 bp from pter
End:
7,158,945 bp from pter
Size:
29,248 bases
Orientation:
Plus strand

Genomic View for CLSTN3 Gene

Genes around CLSTN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLSTN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLSTN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLSTN3 Gene

Proteins for CLSTN3 Gene

  • Protein details for CLSTN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BQT9-CSTN3_HUMAN
    Recommended name:
    Calsyntenin-3
    Protein Accession:
    Q9BQT9
    Secondary Accessions:
    • D3DUT6
    • O94831
    • Q2T9J5
    • Q5UE57

    Protein attributes for CLSTN3 Gene

    Size:
    956 amino acids
    Molecular mass:
    106098 Da
    Quaternary structure:
    • Directly interacts with APBA2. Forms a tripartite complex with APBA2 and APP. Interacts with low affinity with KLC1 (By similarity).
    SequenceCaution:
    • Sequence=BAA34446.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for CLSTN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLSTN3 Gene

Post-translational modifications for CLSTN3 Gene

  • Proteolytically processed under normal cellular conditions. A primary zeta-cleavage generates a large extracellular (soluble) N-terminal domain (sAlc) and a short C-terminal transmembrane fragment (CTF1). A secondary cleavage catalyzed by gamma-secretase within the transmembrane domain releases the beta-Alc-beta chain in the extracellular milieu and produces an intracellular fragment (AlcICD). This processing is strongly suppressed in the tripartite complex formed with APBA2 and APP, which seems to prevent the association with gamma-secretase (By similarity).
  • Glycosylation at Asn 299, Asn 327, Asn 347, Asn 507, Thr 691, Thr 693, and Asn 740
  • Modification sites at PhosphoSitePlus

Other Protein References for CLSTN3 Gene

Antibody Products

  • R&D Systems Antibodies for CLSTN3 (Calsyntenin-3)

No data available for DME Specific Peptides for CLSTN3 Gene

Domains & Families for CLSTN3 Gene

Gene Families for CLSTN3 Gene

Protein Domains for CLSTN3 Gene

Suggested Antigen Peptide Sequences for CLSTN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BQT9

UniProtKB/Swiss-Prot:

CSTN3_HUMAN :
  • Binds synaptic Ca(2+) with its cytoplasmic domain.
Domain:
  • Binds synaptic Ca(2+) with its cytoplasmic domain.
  • Contains 2 cadherin domains.
genes like me logo Genes that share domains with CLSTN3: view

Function for CLSTN3 Gene

Molecular function for CLSTN3 Gene

UniProtKB/Swiss-Prot Function:
May modulate calcium-mediated postsynaptic signals. Complex formation with APBA2 and APP, stabilizes APP metabolism and enhances APBA2-mediated suppression of beta-APP40 secretion, due to the retardation of intracellular APP maturation.

Gene Ontology (GO) - Molecular Function for CLSTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with CLSTN3: view
genes like me logo Genes that share phenotypes with CLSTN3: view

Animal Models for CLSTN3 Gene

MGI Knock Outs for CLSTN3:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLSTN3

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLSTN3 Gene

Localization for CLSTN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLSTN3 Gene

Cell membrane; Single-pass type I membrane protein. Endoplasmic reticulum membrane. Golgi apparatus membrane. Note=Most prominent in the postsynaptic specializations of asymmetric (type I) synapses with both axodendritic and axospinous localization. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CLSTN3 Gene COMPARTMENTS Subcellular localization image for CLSTN3 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 5
golgi apparatus 5
plasma membrane 4
peroxisome 1

Gene Ontology (GO) - Cellular Components for CLSTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0009986 cell surface IEA --
GO:0016021 integral component of membrane IEA --
GO:0043234 protein complex IEA --
genes like me logo Genes that share ontologies with CLSTN3: view

Pathways & Interactions for CLSTN3 Gene

SuperPathways for CLSTN3 Gene

No Data Available

Interacting Proteins for CLSTN3 Gene

Gene Ontology (GO) - Biological Process for CLSTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001558 regulation of cell growth IEA --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007416 synapse assembly IEA --
GO:0035249 synaptic transmission, glutamatergic IEA --
GO:0050806 positive regulation of synaptic transmission IEA --
genes like me logo Genes that share ontologies with CLSTN3: view

No data available for Pathways by source and SIGNOR curated interactions for CLSTN3 Gene

Drugs & Compounds for CLSTN3 Gene

(1) Drugs for CLSTN3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with CLSTN3: view

Transcripts for CLSTN3 Gene

Unigene Clusters for CLSTN3 Gene

Calsyntenin 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLSTN3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9a · 9b · 9c · 9d ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^
SP1: - - - - - - - - -
SP2: - - -
SP3:
SP4: - - - - - - - - - - -
SP5: - - - - - -
SP6: - - - - -
SP7: - - - -
SP8: - - -
SP9:
SP10:
SP11: - - - - - - -
SP12:
SP13:
SP14:

ExUns: 17 ^ 18a · 18b ^ 19 ^ 20 ^ 21 ^ 22a · 22b ^ 23a · 23b ^ 24a · 24b ^ 25a · 25b · 25c · 25d
SP1: - - - -
SP2: - - - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10: -
SP11:
SP12:
SP13:
SP14:

Relevant External Links for CLSTN3 Gene

GeneLoc Exon Structure for
CLSTN3
ECgene alternative splicing isoforms for
CLSTN3

Expression for CLSTN3 Gene

mRNA expression in normal human tissues for CLSTN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CLSTN3 Gene

This gene is overexpressed in Amniocyte (29.0), Urine (15.2), Vitreous humor (10.3), and Fetal Brain (8.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CLSTN3 Gene



Protein tissue co-expression partners for CLSTN3 Gene

NURSA nuclear receptor signaling pathways regulating expression of CLSTN3 Gene:

CLSTN3

SOURCE GeneReport for Unigene cluster for CLSTN3 Gene:

Hs.535378

mRNA Expression by UniProt/SwissProt for CLSTN3 Gene:

Q9BQT9-CSTN3_HUMAN
Tissue specificity: According to PubMed:12498782, expressed predominantly in the brain and in kidney. Low levels in heart, skeletal muscle, liver, placenta, pancreas and lung. According to PubMed:12972431, predominant expression in brain, and only marginal in kidney. In brain, present throughout all cortical layers, highest levels in GABAergic neurons (based on morphology and distribution pattern).
genes like me logo Genes that share expression patterns with CLSTN3: view

Primer Products

No data available for mRNA differential expression in normal tissues for CLSTN3 Gene

Orthologs for CLSTN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CLSTN3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CLSTN3 34
  • 92.08 (n)
  • 97.23 (a)
CLSTN3 35
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLSTN3 34
  • 92.45 (n)
  • 97.45 (a)
CLSTN3 35
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Clstn3 34
  • 89.99 (n)
  • 96.17 (a)
Clstn3 16
Clstn3 35
  • 96 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia CLSTN3 34
  • 98.14 (n)
  • 98.32 (a)
CLSTN3 35
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Clstn3 34
  • 90.24 (n)
  • 95.85 (a)
oppossum
(Monodelphis domestica)
Mammalia CLSTN3 35
  • 93 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CLSTN3 35
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves CLSTN3 34
  • 77.28 (n)
  • 84.03 (a)
CLSTN3 35
  • 77 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CLSTN3 35
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100036725 34
  • 65.36 (n)
  • 65.47 (a)
Str.13295 34
zebrafish
(Danio rerio)
Actinopterygii clstn3 34
  • 65.46 (n)
  • 64.11 (a)
clstn3 35
  • 60 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta calsyntenin-1 36
  • 27 (a)
cals 35
  • 26 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea casy-1 35
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 35 (a)
ManyToMany
-- 35
  • 23 (a)
ManyToMany
Species where no ortholog for CLSTN3 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)
  • 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 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 CLSTN3 Gene

ENSEMBL:
Gene Tree for CLSTN3 (if available)
TreeFam:
Gene Tree for CLSTN3 (if available)

Paralogs for CLSTN3 Gene

Paralogs for CLSTN3 Gene

(2) SIMAP similar genes for CLSTN3 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with CLSTN3: view

Variants for CLSTN3 Gene

Sequence variations from dbSNP and Humsavar for CLSTN3 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
VAR_036114 A colorectal cancer sample
rs7302230 - 7,135,836(+) AGTAC(A/G)GTGGT reference, missense
rs1801869 -- 7,158,912(+) CTAGG(C/G)TTTTC utr-variant-3-prime
rs1868799 -- 7,156,875(+) CGTCC(A/C)GGAGC intron-variant
rs1868800 -- 7,156,877(+) TCCCG(C/G)AGCCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CLSTN3 Gene

Variant ID Type Subtype PubMed ID
esv3428840 CNV duplication 20981092
nsv1069638 CNV deletion 25765185
nsv818882 CNV gain 17921354
nsv832325 CNV gain+loss 17160897

Variation tolerance for CLSTN3 Gene

Residual Variation Intolerance Score: 23.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.70; 57.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLSTN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLSTN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLSTN3 Gene

Disorders for CLSTN3 Gene

Relevant External Links for CLSTN3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLSTN3

No disorders were found for CLSTN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLSTN3 Gene

Publications for CLSTN3 Gene

  1. The calsyntenins - a family of postsynaptic membrane proteins with distinct neuronal expression patterns. (PMID: 12498782) Hintsch G. … Sonderegger P. (Mol. Cell. Neurosci. 2002) 2 3 4 65
  2. Coordinated metabolism of Alcadein and amyloid beta-protein precursor regulates FE65-dependent gene transactivation. (PMID: 15037614) Araki Y. … Suzuki T. (J. Biol. Chem. 2004) 3 4 65
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 65
  4. Novel cadherin-related membrane proteins, Alcadeins, enhance the X11- like protein-mediated stabilization of amyloid beta-protein precursor metabolism. (PMID: 12972431) Araki Y. … Suzuki T. (J. Biol. Chem. 2003) 3 4 65
  5. Prediction of the coding sequences of unidentified human genes. XI. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 9872452) Nagase T. … Ohara O. (DNA Res. 1998) 3 4 65

Products for CLSTN3 Gene

Sources for CLSTN3 Gene

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