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    Sdc1 syndecan 1 [ Mus musculus (house mouse) ]

    Gene ID: 20969, updated on 12-Aug-2018

    Summary

    Official Symbol
    Sdc1provided by MGI
    Official Full Name
    syndecan 1provided by MGI
    Primary source
    MGI:MGI:1349162
    See related
    Ensembl:ENSMUSG00000020592 Vega:OTTMUSG00000033390
    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; AA408134; AA409076
    Expression
    Broad expression in liver adult (RPKM 110.4), bladder adult (RPKM 76.1) and 19 other tissues See more
    Orthologs

    Genomic context

    See Sdc1 in Genome Data Viewer
    Location:
    12 A1.1; 12 3.94 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (8771396..8793716)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (8778202..8800494)

    Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene pumilio RNA-binding family member 2 Neighboring gene predicted gene 4755 Neighboring gene predicted gene, 33418 Neighboring gene RIKEN cDNA 9930038B18 gene Neighboring gene predicted gene, 33483

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

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

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    canonical Wnt signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    myoblast development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of exosomal secretion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of extracellular exosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    wound healing IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    external side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    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_011519.2NP_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
      UniProtKB/TrEMBL
      Q3V1F2
      Related
      ENSMUSP00000020911.7, OTTMUSP00000045098, ENSMUST00000020911.13, OTTMUST00000083825
      Conserved Domains (1) summary
      pfam01034
      Location:246309
      Syndecan; Syndecan domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000078.6 Reference GRCm38.p4 C57BL/6J

      Range
      8771396..8793716
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

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

      Conserved Domains (1) summary
      pfam01034
      Location:237300
      Syndecan; Syndecan domain
    2. XM_006515046.2XP_006515109.1  syndecan-1 isoform X2

      Conserved Domains (1) summary
      pfam01034
      Location:227290
      Syndecan; Syndecan domain
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