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    Sned1 sushi, nidogen and EGF-like domains 1 [ Mus musculus (house mouse) ]

    Gene ID: 208777, updated on 27-Nov-2024

    Summary

    Official Symbol
    Sned1provided by MGI
    Official Full Name
    sushi, nidogen and EGF-like domains 1provided by MGI
    Primary source
    MGI:MGI:3045960
    See related
    Ensembl:ENSMUSG00000047793 AllianceGenome:MGI:3045960
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    SST3; Snep; 6720455I24Rik; D430044C15Rik
    Summary
    Predicted to enable Notch binding activity. Predicted to be involved in cell-matrix adhesion. Located in extracellular matrix. Is expressed in several structures, including alimentary system; central nervous system; embryo mesenchyme; limb interdigital region; and mesothelium. Orthologous to human SNED1 (sushi, nidogen and EGF like domains 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in ovary adult (RPKM 13.0), limb E14.5 (RPKM 9.8) and 20 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Sned1 in Genome Data Viewer
    Location:
    1 D; 1 47.21 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (93163563..93228787)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (93235796..93301065)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene mab-21-like 4 Neighboring gene ciliary rootlet coiled-coil, rootletin family member 2 Neighboring gene STARR-seq mESC enhancer starr_01724 Neighboring gene STARR-seq mESC enhancer starr_01726 Neighboring gene microRNA 6901 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:95202393-95202604 Neighboring gene mitochondrial transcription termination factor 4 Neighboring gene predicted gene 28535 Neighboring gene 60S ribosomal protein L17 pseudogene

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (4)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables Notch binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables molecular_function ND
    No biological Data available
    more info
     
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
     
    involved_in cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    sushi, nidogen and EGF-like domain-containing protein 1
    Names
    secreted nidogen domain protein
    secreted protein SST-3
    secreted protein SST3
    stromal nidogen extracellular matrix 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_172463.5NP_766051.4  sushi, nidogen and EGF-like domain-containing protein 1 precursor

      See identical proteins and their annotated locations for NP_766051.4

      Status: VALIDATED

      Source sequence(s)
      AC124669
      Consensus CDS
      CCDS35670.1
      UniProtKB/Swiss-Prot
      A6H6I3, Q70E20, Q810H2, Q8BMD9
      UniProtKB/TrEMBL
      A0A0R4J0N0
      Related
      ENSMUSP00000050832.8, ENSMUST00000062202.14
      Conserved Domains (5) summary
      cd00033
      Location:698752
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00060
      Location:10051084
      FN3; Fibronectin type 3 domain
      smart00539
      Location:104260
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00054
      Location:311347
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      pfam00041
      Location:908988
      fn3; Fibronectin type III 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_000067.7 Reference GRCm39 C57BL/6J

      Range
      93163563..93228787
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)