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    sdn-1 Syndecan;putative syndecan [ Caenorhabditis elegans ]

    Gene ID: 181259, updated on 23-Nov-2023

    Summary

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    Gene symbol
    sdn-1
    Gene description
    Syndecan;putative syndecan
    Primary source
    WormBase:WBGene00004749
    Locus tag
    CELE_F57C7.3
    See related
    AllianceGenome:WB:WBGene00004749
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Involved in embryo development; epidermis morphogenesis; and nematode larval development. Located in cell surface. Is expressed in several structures, including ABar; C; neuroblasts; neurons; and somatic nervous system. Human ortholog(s) of this gene implicated in cleft lip and cleft palate. Orthologous to several human genes including SDC1 (syndecan 1). [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    Location:
    chromosome: X
    Exon count:
    6
    Sequence:
    Chromosome: X; NC_003284.9 (10589770..10593334, complement)

    Chromosome X - NC_003284.9Genomic Context describing neighboring genes Neighboring gene Sodium/hydrogen exchanger Neighboring gene PKD/REJ-like domain-containing protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003284.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Syndecan promotes axon regeneration by stabilizing growth cone migration. Edwards TJ, et al. Cell Rep, 2014 Jul 10. PMID 25001284, Free PMC Article
    2. Caenorhabditis elegans syndecan (SDN-1) is required for normal egg laying and associates with the nervous system and the vulva. Minniti AN, et al. J Cell Sci, 2004 Oct 1. PMID 15456854
    3. A somatic proteoglycan controls Notch-directed germ cell fate. Gopal S, et al. Nat Commun, 2021 Nov 18. PMID 34795288, Free PMC Article
    4. The HSPG syndecan is a core organizer of cholinergic synapses. Zhou X, et al. J Cell Biol, 2021 Sep 6. PMID 34213535, Free PMC Article
    5. Coordination of Heparan Sulfate Proteoglycans with Wnt Signaling To Control Cellular Migrations and Positioning in Caenorhabditis elegans. Saied-Santiago K, et al. Genetics, 2017 Aug. PMID 28576860, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A somatic proteoglycan controls Notch-directed germ cell fate.
      Title: A somatic proteoglycan controls Notch-directed germ cell fate.
    2. The HSPG syndecan is a core organizer of cholinergic synapses.
      Title: The HSPG syndecan is a core organizer of cholinergic synapses.
    3. SDN-1 controls cell migration in nervous system in coordination with Wnt signaling.
      Title: Coordination of Heparan Sulfate Proteoglycans with Wnt Signaling To Control Cellular Migrations and Positioning in Caenorhabditis elegans.
    4. The sdn-1 mutants showed QR descendant AQR anterior migration defects, and weaker QL descendant PQR migration defects.
      Title: SDN-1/Syndecan Acts in Parallel to the Transmembrane Molecule MIG-13 to Promote Anterior Neuroblast Migration.
    5. Syndecan's core protein, not its sugar chains, mediates growth cone stabilization. Syndecan also functions in axon guidance via its sugar chains.
      Title: Syndecan promotes axon regeneration by stabilizing growth cone migration.
    6. SDN-1 is required for precise orientation of the mitotic spindle in response to a Wnt cue in development.
      Title: Syndecan defines precise spindle orientation by modulating Wnt signaling in C. elegans.
    7. SDN-1 affects UNC-5 function by regulating the proper extracellular distribution of growth factors
      Title: SDN-1/syndecan regulates growth factor signaling in distal tip cell migrations in C. elegans.
    8. distinct heparan sulfate modification patterns on SDN-1 are involved in regulating axon guidance and cell migration in C. elegans
      Title: Syndecan regulates cell migration and axon guidance in C. elegans.
    9. syndecan (SDN-1) is required for normal egg laying and associates with the nervous system and the vulva
      Title: Caenorhabditis elegans syndecan (SDN-1) is required for normal egg laying and associates with the nervous system and the vulva.
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    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 WormBase

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in embryo development ending in birth or egg hatching IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in epidermis morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in epidermis morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nematode larval development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in anchoring junction IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Syndecan;putative syndecan
    NP_741893.1
    • Confirmed by transcript evidence
    NP_741894.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003284.9 Reference assembly

      Range
      10589770..10593334 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_171972.7 → NP_741894.1  putative syndecan [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_741894.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P50605
      Conserved Domains (1) summary
      pfam01034
      Location:227 → 286
      Syndecan; Syndecan domain

    2. NM_171769.7 → NP_741893.1  Syndecan [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_741893.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8I4H9
      Conserved Domains (1) summary
      pfam01034
      Location:226 → 285
      Syndecan; Syndecan domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P50605.1

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