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    Spock3 sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3 [ Mus musculus (house mouse) ]

    Gene ID: 72902, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Spock3provided by MGI
    Official Full Name
    sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3provided by MGI
    Primary source
    MGI:MGI:1920152
    See related
    Ensembl:ENSMUSG00000054162 AllianceGenome:MGI:1920152
    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
    mKIAA4039; 2900045C01Rik
    Summary
    Enables glycosaminoglycan binding activity. Predicted to be involved in negative regulation of endopeptidase activity. Predicted to be located in extracellular matrix and extracellular space. Is expressed in central nervous system and retina. Orthologous to human SPOCK3 (SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 13.8), cortex adult (RPKM 11.3) and 7 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Spock3 in Genome Data Viewer
    Location:
    8 B3.1; 8 31.97 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (63404034..63810135)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (62951000..63357101)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein S2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_21616 Neighboring gene STARR-seq mESC enhancer starr_21617 Neighboring gene predicted gene, 22324 Neighboring gene STARR-seq mESC enhancer starr_21618 Neighboring gene predicted gene, 24236 Neighboring gene STARR-seq mESC enhancer starr_21621 Neighboring gene STARR-seq mESC enhancer starr_21622 Neighboring gene methylthioadenosine phosphorylase pseudogene Neighboring gene predicted gene, 35368

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Testican-3: a brain-specific proteoglycan member of the BM-40/SPARC/osteonectin family. Hartmann U, et al. J Neurochem, 2013 May. PMID 23418755
    2. Structural abnormalities of corpus callosum and cortical axonal tracts accompanied by decreased anxiety-like behavior and lowered sociability in spock3- mutant mice. Yamamoto A, et al. Dev Neurosci, 2014. PMID 25138526
    3. Genetic and structural analysis of the basolateral amygdala complex in BXD recombinant inbred mice. Mozhui K, et al. Behav Genet, 2007 Jan. PMID 17131200
    4. The treasury of the commons: making use of public gene expression resources to better characterize the molecular diversity of inhibitory interneurons in the cerebellar cortex. Schilling K, et al. Cerebellum, 2009 Dec. PMID 19554387
    5. 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

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. these results demonstrate that Spock3 plays an important role in the formation or maintenance of major neuronal structures in the brain.
      Title: Structural abnormalities of corpus callosum and cortical axonal tracts accompanied by decreased anxiety-like behavior and lowered sociability in spock3- mutant mice.
    2. The expression of testican-3 in adult mice is restricted to the brain and located diffusely within the extracellular matrix.
      Title: Testican-3: a brain-specific proteoglycan member of the BM-40/SPARC/osteonectin family.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA4039

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables collagen binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables extracellular matrix binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables glycosaminoglycan binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metalloendopeptidase inhibitor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables peptidase inhibitor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of endopeptidase 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 region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    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_001252620.1 → NP_001239549.1  testican-3 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001239549.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (1).
      Source sequence(s)
      AC122404, AC122455, AC132473, BC017601
      Consensus CDS
      CCDS22326.1
      UniProtKB/Swiss-Prot
      Q8BKV0, Q9ER59
      UniProtKB/TrEMBL
      Q571A9
      Related
      ENSMUSP00000113683.2, ENSMUST00000118003.8
      Conserved Domains (4) summary
      smart00280
      Location:140 → 183
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:316 → 380
      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:200 → 317
      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:199 → 306
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    2. NM_001252621.1 → NP_001239550.1  testican-3 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001239550.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1. Variants 3 and 4 both encode the same isoform (2).
      Source sequence(s)
      AK049843, BC017601
      Consensus CDS
      CCDS57622.1
      UniProtKB/TrEMBL
      Q571A9
      Related
      ENSMUSP00000113797.2, ENSMUST00000117377.8
      Conserved Domains (3) summary
      cd00191
      Location:313 → 377
      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
      pfam07648
      Location:139 → 180
      Kazal_2; Kazal-type serine protease inhibitor domain
      cd16239
      Location:198 → 310
      EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)

    3. NM_001361918.1 → NP_001348847.1  testican-3 isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1. Variants 3 and 4 both encode the same isoform (2).
      Source sequence(s)
      AC122404, AC122455, AC132473
      Consensus CDS
      CCDS57622.1
      UniProtKB/TrEMBL
      Q571A9
      Conserved Domains (3) summary
      cd00191
      Location:313 → 377
      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
      pfam07648
      Location:139 → 180
      Kazal_2; Kazal-type serine protease inhibitor domain
      cd16239
      Location:198 → 310
      EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)

    4. NM_023689.3 → NP_076178.1  testican-3 isoform 1 precursor

      See identical proteins and their annotated locations for NP_076178.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 2 both encode the same isoform (1).
      Source sequence(s)
      AC122404, AK220280, BC017601
      Consensus CDS
      CCDS22326.1
      UniProtKB/Swiss-Prot
      Q8BKV0, Q9ER59
      UniProtKB/TrEMBL
      Q571A9
      Related
      ENSMUSP00000112930.2, ENSMUST00000119068.8
      Conserved Domains (4) summary
      smart00280
      Location:140 → 183
      KAZAL; Kazal type serine protease inhibitors
      cd00191
      Location:316 → 380
      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:200 → 317
      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:199 → 306
      SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      63404034..63810135
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006509517.3 → XP_006509580.1  testican-3 isoform X2

      UniProtKB/TrEMBL
      Q571A9
      Conserved Domains (3) summary
      cd00191
      Location:329 → 393
      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:214 → 326
      EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)
      pfam07648
      Location:150 → 198
      Kazal_2; Kazal-type serine protease inhibitor domain

    2. XM_006509516.3 → XP_006509579.1  testican-3 isoform X1

      UniProtKB/TrEMBL
      Q571A9
      Conserved Domains (3) summary
      cd00191
      Location:332 → 396
      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:217 → 329
      EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)
      pfam07648
      Location:153 → 201
      Kazal_2; Kazal-type serine protease inhibitor domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BKV0.2 GenPept UniProtKB/Swiss-Prot:Q8BKV0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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