U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Sdc1 syndecan 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25216, updated on 9-Dec-2024

    Summary

    Official Symbol
    Sdc1provided by RGD
    Official Full Name
    syndecan 1provided by RGD
    Primary source
    RGD:3648
    See related
    EnsemblRapid:ENSRNOG00000059947 AllianceGenome:RGD:3648
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    HSPG; Synd1; SYNDECA; Syndecan
    Summary
    Predicted to enable cargo receptor activity and identical protein binding activity. Involved in several processes, including Sertoli cell development; response to cAMP; and response to hydrogen peroxide. Part of protein-containing complex. Used to study familial hyperlipidemia. Biomarker of myocardial infarction; obesity; and proteinuria. Orthologous to human SDC1 (syndecan 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 457.9), Liver (RPKM 379.7) and 7 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Sdc1 in Genome Data Viewer
    Location:
    6q14
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (37282041..37304503)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (31562799..31585267)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (33885576..33908038)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 7 (cationic amino acid transporter, y+ system), member 15 Neighboring gene pumilio RNA-binding family member 2 Neighboring gene ribosomal protein S21, pseudogene 6 Neighboring gene lysosomal protein transmembrane 4 alpha

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cargo receptor activity  
    enables extracellular matrix binding PubMed 
    enables identical protein binding  
    enables protein binding PubMed 
    Process Evidence Code Pubs
    involved_in Sertoli cell development PubMed 
    acts_upstream_of_or_within canonical Wnt signaling pathway  
    involved_in cell adhesion PubMed 
    involved_in cell migration  
    involved_in cell-cell signaling PubMed 
    involved_in myoblast development  
    involved_in positive regulation of exosomal secretion  
    involved_in positive regulation of extracellular exosome assembly  
    involved_in receptor-mediated endocytosis  
    involved_in response to cAMP PubMed 
    involved_in response to calcium ion PubMed 
    involved_in response to glucocorticoid PubMed 
    involved_in response to hydrogen peroxide PubMed 
    involved_in response to toxic substance PubMed 
    involved_in striated muscle cell development  
    involved_in ureteric bud development PubMed 
    Component Evidence Code Pubs
    is_active_in cell surface  
    located_in cell surface  
    located_in external side of plasma membrane  
    located_in extracellular region  
    is_active_in plasma membrane  
    part_of protein-containing complex PubMed 

    NCBI Reference Sequences (RefSeq)

    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_013026.2NP_037158.1  syndecan-1 precursor

      See identical proteins and their annotated locations for NP_037158.1

      Status: PROVISIONAL

      Source sequence(s)
      BC061834
      UniProtKB/Swiss-Prot
      P26260
      UniProtKB/TrEMBL
      A6HAM5
      Related
      ENSRNOP00000104961.1, ENSRNOT00000134281.1
      Conserved Domains (1) summary
      pfam01034
      Location:248311
      Syndecan; Syndecan domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      37282041..37304503
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    External link. Please review our privacy policy.