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Sdc1 syndecan 1 [ Mus musculus (house mouse) ]

Gene ID: 20969, updated on 24-Sep-2024

Summary

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Official Symbol
Sdc1provided by MGI
Official Full Name
syndecan 1provided by MGI
Primary source
MGI:MGI:1349162
See related
Ensembl:ENSMUSG00000020592 AllianceGenome:MGI:1349162
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
Sstn; Synd; CD138; Synd1; syn-1
Summary
Predicted to enable identical protein binding activity and protein C-terminus binding activity. Involved in myoblast development. Acts upstream of or within canonical Wnt signaling pathway. Located in external side of plasma membrane. Is expressed in several structures, including alimentary system; egg cylinder; sensory organ; skin; and urinary system. Orthologous to human SDC1 (syndecan 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in liver adult (RPKM 110.4), bladder adult (RPKM 76.1) and 19 other tissues See more
Orthologs
human all
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Genomic context

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See Sdc1 in Genome Data Viewer
Location:
12 A1.1; 12 3.94 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (8821396..8843716)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (8771396..8793716)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_31513 Neighboring gene pumilio RNA-binding family member 2 Neighboring gene predicted gene 4755 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:8793937-8794046 Neighboring gene predicted gene, 33418 Neighboring gene STARR-seq mESC enhancer starr_31515 Neighboring gene RIKEN cDNA 9930038B18 gene Neighboring gene STARR-seq mESC enhancer starr_31516 Neighboring gene predicted gene, 33483

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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

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Related articles in PubMed

  1. High molecular weight sodium hyaluronate improves survival of syndecan-1-deficient septic mice by inhibiting neutrophil migration. Baljinnyam T, et al. PLoS One, 2021. PMID 33930030, Free PMC Article
  2. Syndecan-1 Promotes Streptococcus pneumoniae Corneal Infection by Facilitating the Assembly of Adhesive Fibronectin Fibrils. Jinno A, et al. mBio, 2020 Dec 8. PMID 33293379, Free PMC Article
  3. The heparan sulfate proteoglycan Syndecan-1 influences local bone cell communication via the RANKL/OPG axis. Timmen M, et al. Sci Rep, 2020 Nov 25. PMID 33239699, Free PMC Article
  4. Disease Stage-Specific Pathogenicity of CD138 (Syndecan 1)-Expressing T Cells in Systemic Lupus Erythematosus. Liu L, et al. Front Immunol, 2020. PMID 32849532, Free PMC Article
  5. Role of syndecan-1 in the interaction between dendritic cells and T cells. Kouwenberg M, et al. PLoS One, 2020. PMID 32701966, Free PMC Article

See all (254) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Syndecan-1 Plays a Role in the Pathogenesis of Sjogren's Disease by Inducing B-Cell Chemotaxis through CXCL13-Heparan Sulfate Interaction.
    Title: Syndecan-1 Plays a Role in the Pathogenesis of Sjögren's Disease by Inducing B-Cell Chemotaxis through CXCL13-Heparan Sulfate Interaction.
  2. Lack of Syndecan-1 promotes the pathogenesis of experimental rheumatoid arthritis.
    Title: Lack of Syndecan-1 promotes the pathogenesis of experimental rheumatoid arthritis.
  3. Syndecan-1 as the Effect or Effector of the Endothelial Inflammatory Response?
    Title: Syndecan-1 as the Effect or Effector of the Endothelial Inflammatory Response?
  4. CircKIF4A combines EIF4A3 to stabilize SDC1 expression to activate c-src/FAK and promotes TNBC progression.
    Title: CircKIF4A combines EIF4A3 to stabilize SDC1 expression to activate c-src/FAK and promotes TNBC progression.
  5. 3-O sulfation of syndecan-1 mediated by the sulfotransferase HS3ST3a1 enhances myeloma aggressiveness.
    Title: 3-O sulfation of syndecan-1 mediated by the sulfotransferase HS3ST3a1 enhances myeloma aggressiveness.
  6. HIF-1alpha promotes the expression of syndecan-1 and inhibits the NLRP3 inflammasome pathway in vascular endothelial cells under hemorrhagic shock.
    Title: HIF-1α promotes the expression of syndecan-1 and inhibits the NLRP3 inflammasome pathway in vascular endothelial cells under hemorrhagic shock.
  7. CD138 expression is a molecular signature but not a developmental requirement for RORgammat+ NKT17 cells.
    Title: CD138 expression is a molecular signature but not a developmental requirement for RORγt+ NKT17 cells.
  8. Syndecan-1 and Glypican-1 Knockout Alters Body Water Balance and Urine Response to Fluid Challenge in Mice.
    Title: Syndecan-1 and Glypican-1 Knockout Alters Body Water Balance and Urine Response to Fluid Challenge in Mice.
  9. Syndecan-1 Amplifies Ovalbumin-Induced Airway Remodeling by Strengthening TGFbeta1/Smad3 Action.
    Title: Syndecan-1 Amplifies Ovalbumin-Induced Airway Remodeling by Strengthening TGFβ1/Smad3 Action.
  10. Circulating CD138 enhances disease progression by augmenting autoreactive antibody production in a mouse model of systemic lupus erythematosus.
    Title: Circulating CD138 enhances disease progression by augmenting autoreactive antibody production in a mouse model of systemic lupus erythematosus.
Submit: New GeneRIF Correction See all GeneRIFs (123)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (7) 
  • Targeted (1)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables cargo receptor activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in Sertoli cell development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in myoblast development IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of exosomal secretion IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of exosomal secretion ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of extracellular exosome assembly IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of extracellular exosome assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in receptor-mediated endocytosis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to cAMP IEA
Inferred from Electronic Annotation
more info
  
involved_in response to calcium ion IEA
Inferred from Electronic Annotation
more info
  
involved_in response to glucocorticoid IEA
Inferred from Electronic Annotation
more info
  
involved_in response to hydrogen peroxide IEA
Inferred from Electronic Annotation
more info
  
involved_in response to toxic substance IEA
Inferred from Electronic Annotation
more info
  
involved_in striated muscle cell development IEA
Inferred from Electronic Annotation
more info
  
involved_in ureteric bud development IEA
Inferred from Electronic Annotation
more info
  
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 external side of plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular region TAS
Traceable Author Statement
more info
  
is_active_in plasma membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
  
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
syndecan-1
Names
synstatin

NCBI Reference Sequences (RefSeq)

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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_011519.2 → NP_035649.1  syndecan-1 precursor

    See identical proteins and their annotated locations for NP_035649.1

    Status: PROVISIONAL

    Source sequence(s)
    AC154906
    Consensus CDS
    CCDS25803.1
    UniProtKB/Swiss-Prot
    P18828, Q62278, Q9WVD2
    UniProtKB/TrEMBL
    Q3THY2, Q3V1F2
    Related
    ENSMUSP00000020911.8, ENSMUST00000020911.14
    Conserved Domains (1) summary
    pfam01034
    Location:246 → 309
    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_000078.7 Reference GRCm39 C57BL/6J

    Range
    8821396..8843716
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006515045.1 → XP_006515108.1  syndecan-1 isoform X1

    UniProtKB/TrEMBL
    Q3THY2
    Conserved Domains (2) summary
    PHA03247
    Location:2 → 170
    PHA03247; large tegument protein UL36; Provisional
    pfam01034
    Location:237 → 300
    Syndecan; Syndecan domain

  2. XM_006515046.2 → XP_006515109.1  syndecan-1 isoform X2

    UniProtKB/TrEMBL
    Q3THY2
    Conserved Domains (1) summary
    pfam01034
    Location:227 → 290
    Syndecan; Syndecan domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P18828.1 GenPept UniProtKB/Swiss-Prot:P18828

Gene LinkOut

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