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Aliases for SDC3 Gene

Aliases for SDC3 Gene

  • Syndecan 3 2 3
  • Syndecan Proteoglycan 3 2 3
  • SYND3 3 4
  • Syndecan 3 (N-Syndecan) 2
  • Syndecan Neural Type 3
  • N-Syndecan 3
  • KIAA0468 4
  • SDCN 3

External Ids for SDC3 Gene

Previous GeneCards Identifiers for SDC3 Gene

  • GC01M031136
  • GC01M030326
  • GC01M030768
  • GC01M030844
  • GC01M031011
  • GC01M031342
  • GC01M029448

Summaries for SDC3 Gene

Entrez Gene Summary for SDC3 Gene

  • The protein encoded by this gene belongs to the syndecan proteoglycan family. It may play a role in the organization of cell shape by affecting the actin cytoskeleton, possibly by transferring signals from the cell surface in a sugar-dependent mechanism. Allelic variants of this gene have been associated with obesity. [provided by RefSeq, Oct 2009]

GeneCards Summary for SDC3 Gene

SDC3 (Syndecan 3) is a Protein Coding gene. Diseases associated with SDC3 include obesity. Among its related pathways are Signaling by GPCR and Infectious disease. GO annotations related to this gene include cytoskeletal protein binding. An important paralog of this gene is SDC4.

UniProtKB/Swiss-Prot for SDC3 Gene

  • Cell surface proteoglycan that may bear heparan sulfate (By similarity). May have a role in the organization of cell shape by affecting the actin cytoskeleton, possibly by transferring signals from the cell surface in a sugar-dependent mechanism.

Gene Wiki entry for SDC3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDC3 Gene

Genomics for SDC3 Gene

Regulatory Elements for SDC3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SDC3 Gene

Chromosome:
1
Start:
30,869,466 bp from pter
End:
30,909,735 bp from pter
Size:
40,270 bases
Orientation:
Minus strand

Genomic View for SDC3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
GeneLoc Logo Gene Density

RefSeq DNA sequence for SDC3 Gene

Proteins for SDC3 Gene

  • Protein details for SDC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75056-SDC3_HUMAN
    Recommended name:
    Syndecan-3
    Protein Accession:
    O75056
    Secondary Accessions:
    • Q5T1Z6
    • Q5T1Z7
    • Q96CT3
    • Q96PR8

    Protein attributes for SDC3 Gene

    Size:
    442 amino acids
    Molecular mass:
    45497 Da
    Quaternary structure:
    • Interacts with TIAM1.
    SequenceCaution:
    • Sequence=BAA32313.2; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305};

neXtProt entry for SDC3 Gene

Proteomics data for SDC3 Gene at MOPED

Post-translational modifications for SDC3 Gene

  • O-glycosylated within the Thr/Ser-rich region which could interact with lectin domains on other molecules.
  • Glycosylation at Ser 80, Ser 82, Ser 84, Ser 91, Thr 253, Thr 265, Ser 314, Ser 344, and Ser 367
  • Modification sites at PhosphoSitePlus

Other Protein References for SDC3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for SDC3 Gene

Domains & Families for SDC3 Gene

Gene Families for SDC3 Gene

Suggested Antigen Peptide Sequences for SDC3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75056

UniProtKB/Swiss-Prot:

SDC3_HUMAN :
  • Belongs to the syndecan proteoglycan family.
Family:
  • Belongs to the syndecan proteoglycan family.
genes like me logo Genes that share domains with SDC3: view

Function for SDC3 Gene

Molecular function for SDC3 Gene

UniProtKB/Swiss-Prot Function:
Cell surface proteoglycan that may bear heparan sulfate (By similarity). May have a role in the organization of cell shape by affecting the actin cytoskeleton, possibly by transferring signals from the cell surface in a sugar-dependent mechanism.

Gene Ontology (GO) - Molecular Function for SDC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with SDC3: view
genes like me logo Genes that share phenotypes with SDC3: view

Animal Models for SDC3 Gene

MGI Knock Outs for SDC3:

Animal Model Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SDC3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for SDC3 Gene

Localization for SDC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDC3 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SDC3 Gene COMPARTMENTS Subcellular localization image for SDC3 gene
Compartment Confidence
golgi apparatus 4
lysosome 4
plasma membrane 4
vacuole 4
mitochondrion 2
nucleus 2
cytoskeleton 1
extracellular 1

Gene Ontology (GO) - Cellular Components for SDC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005796 Golgi lumen TAS --
GO:0005886 plasma membrane TAS --
GO:0009986 cell surface IBA --
GO:0016020 membrane ISS --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SDC3: view

Pathways & Interactions for SDC3 Gene

genes like me logo Genes that share pathways with SDC3: view

Gene Ontology (GO) - Biological Process for SDC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001523 retinoid metabolic process TAS --
GO:0005975 carbohydrate metabolic process TAS --
GO:0006024 glycosaminoglycan biosynthetic process TAS --
GO:0006027 glycosaminoglycan catabolic process TAS --
GO:0007155 cell adhesion IEA --
genes like me logo Genes that share ontologies with SDC3: view

No data available for SIGNOR curated interactions for SDC3 Gene

Drugs & Compounds for SDC3 Gene

No Compound Related Data Available

Transcripts for SDC3 Gene

Unigene Clusters for SDC3 Gene

Syndecan 3:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SDC3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDC3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9a · 9b · 9c
SP1: - - - - -
SP2: - - -
SP3:
SP4: -
SP5: -
SP6:

Relevant External Links for SDC3 Gene

GeneLoc Exon Structure for
SDC3
ECgene alternative splicing isoforms for
SDC3

Expression for SDC3 Gene

mRNA expression in normal human tissues for SDC3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SDC3 Gene

This gene is overexpressed in Adrenal (29.9), Fetal Brain (11.1), Prostate (8.4), Colon (7.1), and Urinary Bladder (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for SDC3 Gene



SOURCE GeneReport for Unigene cluster for SDC3 Gene Hs.158287

mRNA Expression by UniProt/SwissProt for SDC3 Gene

O75056-SDC3_HUMAN
Tissue specificity: Expressed in the nervous system, the adrenal gland, and the spleen.
genes like me logo Genes that share expression patterns with SDC3: view

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for SDC3 Gene

Orthologs for SDC3 Gene

This gene was present in the common ancestor of animals.

Orthologs for SDC3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SDC3 35
  • 90.8 (n)
  • 93.21 (a)
SDC3 36
  • 86 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SDC3 35
  • 88.19 (n)
  • 92.21 (a)
SDC3 36
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdc3 35
  • 83.33 (n)
  • 85.53 (a)
Sdc3 16
Sdc3 36
  • 83 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SDC3 35
  • 99.33 (n)
  • 99.13 (a)
SDC3 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdc3 35
  • 84.01 (n)
  • 86.55 (a)
oppossum
(Monodelphis domestica)
Mammalia SDC3 36
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves SDC3 35
  • 65.43 (n)
  • 59.95 (a)
SDC3 36
  • 58 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SDC3 36
  • 50 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sdc3 35
  • 53.51 (n)
  • 49.57 (a)
African clawed frog
(Xenopus laevis)
Amphibia sdc3-A 35
zebrafish
(Danio rerio)
Actinopterygii Dr.28157 35
sdc3 36
  • 36 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Sdc 36
  • 18 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea sdn-1 36
  • 23 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3537 36
  • 32 (a)
OneToMany
Species with no ortholog for SDC3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 SDC3 Gene

ENSEMBL:
Gene Tree for SDC3 (if available)
TreeFam:
Gene Tree for SDC3 (if available)

Paralogs for SDC3 Gene

Paralogs for SDC3 Gene

(1) SIMAP similar genes for SDC3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with SDC3: view

Variants for SDC3 Gene

Sequence variations from dbSNP and Humsavar for SDC3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs6943 -- 30,869,743(-) CCAGG(A/C)CTTCC utr-variant-3-prime
rs870325 -- 30,887,600(+) CAATC(A/G)CTTAC intron-variant, upstream-variant-2KB
rs870326 -- 30,887,601(+) AATCG(C/G)TTACC intron-variant, upstream-variant-2KB
rs947647 -- 30,901,634(+) GGCCC(A/T)TGGTC intron-variant
rs947648 -- 30,890,562(+) CTAAA(A/T)TTAGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDC3 Gene

Variant ID Type Subtype PubMed ID
nsv519204 CNV Gain 19592680
nsv461006 CNV Loss 19166990
nsv470707 CNV Gain 18288195
esv2746253 CNV Deletion 23290073
esv2746264 CNV Deletion 23290073
esv2244846 CNV Deletion 18987734
nsv160596 CNV Loss 16902084
esv2746275 CNV Deletion 23290073
nsv160199 CNV Loss 16902084

Variation tolerance for SDC3 Gene

Residual Variation Intolerance Score: 81.99% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.65; 94.57% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SDC3 Gene

HapMap Linkage Disequilibrium report
SDC3
Human Gene Mutation Database (HGMD)
SDC3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDC3 Gene

Disorders for SDC3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SDC3 Gene - From: OMIM, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
obesity
  • obesity, association with
- elite association
Search SDC3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SDC3

Genetic Association Database (GAD)
SDC3
Human Genome Epidemiology (HuGE) Navigator
SDC3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SDC3
genes like me logo Genes that share disorders with SDC3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SDC3 Gene

Publications for SDC3 Gene

  1. Role of syndecan-3 polymorphisms in obesity and female hyperandrogenism. (PMID: 19820907) SchA1ring A.N. … GAPtte M. (J. Mol. Med. 2009) 23 67
  2. Cloning and characterization of human syndecan-3. (PMID: 11527150) Berndt C. … Reina M. (J. Cell. Biochem. 2001) 2 67
  3. Molecular cloning and characterization of N-syndecan, a novel transmembrane heparan sulfate proteoglycan. (PMID: 1556152) Carey D.J. … Cizmeci-Smith G. (J. Cell Biol. 1992) 2 67
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 67
  5. Midkine promotes perineural invasion in human pancreatic cancer. (PMID: 24659893) Yao J. … Gao S.G. (World J. Gastroenterol. 2014) 67

Products for SDC3 Gene

Sources for SDC3 Gene

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