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

Gene ID: 306404, updated on 14-Nov-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
EnsemblRapid: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 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, Nov 2024]
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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See Spock3 in Genome Data Viewer
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 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 ISO
Inferred from Sequence Orthology
more info
  
enables metalloendopeptidase inhibitor activity ISO
Inferred from Sequence Orthology
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
  
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
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
    Related
    ENSRNOP00000056503.5, ENSRNOT00000059750.6
    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
    Related
    ENSRNOP00000095055.2, ENSRNOT00000115514.2

  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

  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

Gene LinkOut

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