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    Spock3 SPARC/osteonectin, cwcv and kazal like domains proteoglycan 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306404, updated on 3-Apr-2024

    Summary

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    Official Symbol
    Spock3provided by RGD
    Official Full Name
    SPARC/osteonectin, cwcv and kazal like domains proteoglycan 3provided by RGD
    Primary source
    RGD:1305672
    See related
    Ensembl:ENSRNOG00000029903 AllianceGenome:RGD:1305672
    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
    Summary
    Predicted to enable glycosaminoglycan binding activity and metalloendopeptidase inhibitor activity. Predicted to be involved in negative regulation of endopeptidase activity. Predicted to act upstream of or within peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan. Predicted to be located in extracellular matrix and extracellular space. Orthologous to human SPOCK3 (SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 332.2) and Adrenal (RPKM 19.5) See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    16p13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (31149698..31582280, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (26382895..26815943, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (28372067..28716762, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene nucleophosmin 1, pseudogene 1 Neighboring gene uncharacterized LOC134482369 Neighboring gene small nucleolar RNA SNORA70 Neighboring gene U6 spliceosomal RNA Neighboring gene ribosomal protein S3a, pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Suppression of membrane-type 1 matrix metalloproteinase (MMP)-mediated MMP-2 activation and tumor invasion by testican 3 and its splicing variant gene product, N-Tes. Nakada M, et al. Cancer Res, 2001 Dec 15. PMID 11751414
    2. Transcriptome-based systematic identification of extracellular matrix proteins. Manabe R, et al. Proc Natl Acad Sci U S A, 2008 Sep 2. PMID 18757743, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables glycosaminoglycan binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metalloendopeptidase inhibitor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    testican-3
    Names
    sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 3
    sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3

    NCBI Reference Sequences (RefSeq)

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    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_001107310.1 → NP_001100780.1  testican-3 precursor

      See identical proteins and their annotated locations for NP_001100780.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474045
      UniProtKB/TrEMBL
      A0A8I6AMA2, A6KFQ0
      Conserved Domains (4) summary
      smart00280
      Location:143 → 186
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:319 → 383
      TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
      cd00252
      Location:203 → 320
      SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...
      pfam10591
      Location:202 → 309
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    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_086034.1 Reference GRCr8

      Range
      31149698..31582280 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017600103.3 → XP_017455592.1  testican-3 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AMA2

    2. XM_063275407.1 → XP_063131477.1  testican-3 isoform X2

      UniProtKB/TrEMBL
      D3ZUT1

    3. XM_017600105.3 → XP_017455594.1  testican-3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AMA2, D3ZUT1
      Related
      ENSRNOP00000056503.4

    4. XM_039094497.2 → XP_038950425.1  testican-3 isoform X3

      Conserved Domains (2) summary
      cd00191
      Location:126 → 190
      TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
      cd16239
      Location:11 → 123
      EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)
    Nucleotide Protein Strain
    Heading Accession and Version

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