Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Sdc4 syndecan 4 [ Mus musculus (house mouse) ]

    Gene ID: 20971, updated on 6-Sep-2021

    Summary

    Official Symbol
    Sdc4provided by MGI
    Official Full Name
    syndecan 4provided by MGI
    Primary source
    MGI:MGI:1349164
    See related
    Ensembl:ENSMUSG00000017009
    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
    S; S4; Syn; ryud; Synd4; syndec; AA959608; AW108331; ryudocan; syndecan-4
    Expression
    Broad expression in kidney adult (RPKM 79.7), liver adult (RPKM 72.9) and 24 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Sdc4 in Genome Data Viewer
    Location:
    2 H3; 2 85.16 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109 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)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (164249747..164268688, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene microRNA 7678 Neighboring gene secretory leukocyte peptidase inhibitor Neighboring gene matrilin 4 Neighboring gene recombination signal binding protein for immunoglobulin kappa J region-like Neighboring gene SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae) Neighboring gene transformation related protein 53 target 5 Neighboring gene dysbindin (dystrobrevin binding protein 1) domain containing 2 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class T

    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 Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    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
     
    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
    PubMed 
    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 integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane raft ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    syndecan-4
    Names
    ryudocan core protein

    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_011521.2NP_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
      Related
      ENSMUSP00000017153.4, ENSMUST00000017153.4
      Conserved Domains (1) summary
      pfam01034
      Location:139196
      Syndecan; Syndecan domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    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_036160218.1XP_036016111.1  syndecan-4 isoform X1

      Conserved Domains (1) summary
      pfam01034
      Location:139196
      Syndecan; Syndecan domain
    Support Center