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    spock3 SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3 [ Danio rerio (zebrafish) ]

    Gene ID: 562002, updated on 27-Mar-2024

    Summary

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    Official Symbol
    spock3provided by ZNC
    Official Full Name
    SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-090311-24
    See related
    Ensembl:ENSDARG00000070266 AllianceGenome:ZFIN:ZDB-GENE-090311-24
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7139568; si:dkey-285b22.1
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be located in extracellular region and membrane. Predicted to be integral component of membrane. Is expressed in cardiovascular system; nervous system; and neural tube. Orthologous to human SPOCK3 (SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See spock3 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (20635190..20706298)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (19942253..20013361)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3 Neighboring gene UDP glycosyltransferase 8 Neighboring gene tolloid-like 1 Neighboring gene carboxypeptidase E

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Dynamic expression of sparc precedes formation of skeletal elements in the Medaka (Oryzias latipes). Renn J, et al. Gene, 2006 May 10. PMID 16545530
    2. Zebrafish models of skeletal dysplasia induced by cholesterol biosynthesis deficiency. Anderson RA, et al. Dis Model Mech, 2020 Jun 24. PMID 32430393, Free PMC Article
    3. Discovery and characterization of novel vascular and hematopoietic genes downstream of etsrp in zebrafish. Gomez GA, et al. PLoS One, 2009. PMID 19308258, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. 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 ZFIN

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    testican-3
    Names
    sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 3
    testican 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_001327987.1 → NP_001314916.1  testican-3 isoform a precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a),
      Source sequence(s)
      CR381587, EB939186, EH433753, EH447295, EH458122, EH468737
      UniProtKB/TrEMBL
      A0A0R4IMY5, A0A8M1P8M2
      Conserved Domains (4) summary
      smart00280
      Location:106 → 149
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:275 → 339
      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:161 → 277
      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:160 → 265
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    2. NM_001327988.1 → NP_001314917.1  testican-3 isoform b precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
      Source sequence(s)
      CR381587, EB939186, EH433753, EH447295, EH458122, EH468737
      UniProtKB/TrEMBL
      A0A8M1P451, F1RAX3
      Related
      ENSDARP00000123781.1, ENSDART00000148518.3
      Conserved Domains (4) summary
      smart00280
      Location:103 → 146
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:272 → 336
      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:158 → 274
      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:157 → 262
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007112.7 Reference GRCz11 Primary Assembly

      Range
      20635190..20706298
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009307619.3 → XP_009305894.1  testican-3 isoform X1

      UniProtKB/TrEMBL
      A0A8M3BEW5
      Related
      ENSDARP00000135664.2, ENSDART00000166479.2
      Conserved Domains (4) summary
      smart00280
      Location:108 → 151
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:277 → 341
      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:163 → 279
      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:162 → 267
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    2. XM_017355108.1 → XP_017210597.1  testican-3 isoform X2

      UniProtKB/TrEMBL
      A0A8M6YZL5
      Related
      ENSDARP00000093744.4, ENSDART00000102969.5

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395210.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      581507..652614
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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