U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Sdc4 syndecan 4 [ Mus musculus (house mouse) ]

Gene ID: 20971, updated on 5-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
Sdc4provided by MGI
Official Full Name
syndecan 4provided by MGI
Primary source
MGI:MGI:1349164
See related
Ensembl:ENSMUSG00000017009 AllianceGenome:MGI:1349164
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
S4; Synd4; ryudocan; syndecan-4
Summary
Predicted to enable several functions, including fibronectin binding activity; protein kinase C binding activity; and thrombospondin receptor activity. Involved in regulation of fibroblast migration. Acts upstream of or within inner ear receptor cell stereocilium organization; neural tube closure; and wound healing. Located in cell surface. Is expressed in several structures, including alimentary system; brain; genitourinary system; skeleton; and skin. Orthologous to human SDC4 (syndecan 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in kidney adult (RPKM 79.7), liver adult (RPKM 72.9) and 24 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
2 H3; 2 85.16 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (164266167..164285512, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (164424247..164443188, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene microRNA 7678 Neighboring gene STARR-seq mESC enhancer starr_06324 Neighboring gene secretory leukocyte peptidase inhibitor Neighboring gene matrilin 4 Neighboring gene STARR-positive B cell enhancer ABC_E6015 Neighboring gene recombination signal binding protein for immunoglobulin kappa J region-like Neighboring gene STARR-positive B cell enhancer ABC_E4517 Neighboring gene STARR-positive B cell enhancer ABC_E6016 Neighboring gene STARR-seq mESC enhancer starr_06326 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:164266728-164266915 Neighboring gene STARR-seq mESC enhancer starr_06330 Neighboring gene STARR-positive B cell enhancer ABC_E7884 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:164286295-164286478 Neighboring gene SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae) Neighboring gene transformation related protein 53 target 5 Neighboring gene dysbindin domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E9539 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class T

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Unravelling the Effects of Syndecan-4 Knockdown on Skeletal Muscle Functions. Sztretye M, et al. Int J Mol Sci, 2023 Apr 8. PMID 37108098, Free PMC Article
  2. Cardiomyocyte-specific overexpression of syndecan-4 in mice results in activation of calcineurin-NFAT signalling and exacerbated cardiac hypertrophy. Lunde IG, et al. Mol Biol Rep, 2022 Dec. PMID 36205855, Free PMC Article
  3. The female syndecan-4(-/-) heart has smaller cardiomyocytes, augmented insulin/pSer473-Akt/pSer9-GSK-3β signaling, and lowered SCOP, pThr308-Akt/Akt and GLUT4 levels. Støle TP, et al. Front Cell Dev Biol, 2022. PMID 36092718, Free PMC Article
  4. A reduction of Syndecan-4 in macrophages promotes atherosclerosis by aggravating the proinflammatory capacity of macrophages. Hu J, et al. J Transl Med, 2022 Jul 16. PMID 35842658, Free PMC Article
  5. Proteomic analysis reveals exercise training induced remodelling of hepatokine secretion and uncovers syndecan-4 as a regulator of hepatic lipid metabolism. De Nardo W, et al. Mol Metab, 2022 Jun. PMID 35381388, Free PMC Article

See all (172) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Unravelling the Effects of Syndecan-4 Knockdown on Skeletal Muscle Functions.
    Title: Unravelling the Effects of Syndecan-4 Knockdown on Skeletal Muscle Functions.
  2. Cardiomyocyte-specific overexpression of syndecan-4 in mice results in activation of calcineurin-NFAT signalling and exacerbated cardiac hypertrophy.
    Title: Cardiomyocyte-specific overexpression of syndecan-4 in mice results in activation of calcineurin-NFAT signalling and exacerbated cardiac hypertrophy.
  3. Cholesterol-induced LRP3 downregulation promotes cartilage degeneration in osteoarthritis by targeting Syndecan-4.
    Title: Cholesterol-induced LRP3 downregulation promotes cartilage degeneration in osteoarthritis by targeting Syndecan-4.
  4. A reduction of Syndecan-4 in macrophages promotes atherosclerosis by aggravating the proinflammatory capacity of macrophages.
    Title: A reduction of Syndecan-4 in macrophages promotes atherosclerosis by aggravating the proinflammatory capacity of macrophages.
  5. Integrin alpha11beta1 and syndecan-4 dual receptor ablation attenuate cardiac hypertrophy in the pressure overloaded heart.
    Title: Integrin α11β1 and syndecan-4 dual receptor ablation attenuate cardiac hypertrophy in the pressure overloaded heart.
  6. Proteomic analysis reveals exercise training induced remodelling of hepatokine secretion and uncovers syndecan-4 as a regulator of hepatic lipid metabolism.
    Title: Proteomic analysis reveals exercise training induced remodelling of hepatokine secretion and uncovers syndecan-4 as a regulator of hepatic lipid metabolism.
  7. Roles of Syndecan-4 in cardiac injury and repair.
    Title: Roles of Syndecan-4 in cardiac injury and repair.
  8. Syndecan-4 affects myogenesis via Rac1-mediated actin remodeling and exhibits copy-number amplification and increased expression in human rhabdomyosarcoma tumors.
    Title: Syndecan-4 affects myogenesis via Rac1-mediated actin remodeling and exhibits copy-number amplification and increased expression in human rhabdomyosarcoma tumors.
  9. Inhibition of syndecan-4 reduces cartilage degradation in murine models of osteoarthritis through the downregulation of HIF-2alpha by miR-96-5p.
    Title: Inhibition of syndecan-4 reduces cartilage degradation in murine models of osteoarthritis through the downregulation of HIF-2α by miR-96-5p.
  10. Syndecan-4/PAR-3 signaling regulates focal adhesion dynamics in mesenchymal cells.
    Title: Syndecan-4/PAR-3 signaling regulates focal adhesion dynamics in mesenchymal cells.
Submit: New GeneRIF Correction See all GeneRIFs (93)

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Go to the top of the page

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables fibronectin binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein kinase C binding ISO
Inferred from Sequence Orthology
more info
  
enables thrombospondin receptor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within inner ear receptor cell stereocilium organization IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in negative regulation of T cell proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neural tube closure IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in positive regulation of exosomal secretion ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of extracellular exosome assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of focal adhesion assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of stress fiber assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of fibroblast migration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within wound healing IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi lumen TAS
Traceable Author Statement
more info
  
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
  
located_in costamere ISO
Inferred from Sequence Orthology
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
syndecan-4
Names
ryudocan core protein

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_011521.2 → NP_035651.1  syndecan-4 precursor

    See identical proteins and their annotated locations for NP_035651.1

    Status: PROVISIONAL

    Source sequence(s)
    AL590429
    Consensus CDS
    CCDS17036.1
    UniProtKB/Swiss-Prot
    O35988
    UniProtKB/TrEMBL
    Q3U5S6, Q3UKZ1
    Related
    ENSMUSP00000017153.4, ENSMUST00000017153.4
    Conserved Domains (1) summary
    pfam01034
    Location:139 → 196
    Syndecan; Syndecan domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    164266167..164285512 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036160218.1 → XP_036016111.1  syndecan-4 isoform X1

    UniProtKB/Swiss-Prot
    O35988
    UniProtKB/TrEMBL
    Q3U5S6, Q3UKZ1
    Conserved Domains (1) summary
    pfam01034
    Location:139 → 196
    Syndecan; Syndecan domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O35988.1 GenPept UniProtKB/Swiss-Prot:O35988

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous