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

Gene ID: 72902, updated on 21-Apr-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. Acts upstream of or within peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan. 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, Apr 2022]
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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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 IEA
Inferred from Electronic Annotation
more info
  
enables enzyme inhibitor activity IEA
Inferred from Electronic Annotation
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
  
acts_upstream_of_or_within negative regulation of peptidase activity IEA
Inferred from Electronic Annotation
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
  
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

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