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SPOCK3 SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3 [ Homo sapiens (human) ]

Gene ID: 50859, updated on 24-Nov-2020

Summary

Official Symbol
SPOCK3provided by HGNC
Official Full Name
SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3provided by HGNC
Primary source
HGNC:HGNC:13565
See related
Ensembl:ENSG00000196104 MIM:607989
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TES-3; TICN3; HSAJ1454
Summary
This gene encodes a member of a novel family of calcium-binding proteoglycan proteins that contain thyroglobulin type-1 and Kazal-like domains. The encoded protein and may play a role in adult T-cell leukemia by inhibiting the activity of membrane-type matrix metalloproteinases. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Oct 2011]
Expression
Biased expression in brain (RPKM 28.5), prostate (RPKM 28.2) and 2 other tissues See more
Orthologs

Genomic context

See SPOCK3 in Genome Data Viewer
Location:
4q32.3
Exon count:
15
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (166733384..167234869, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (167654535..168155741, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377521 Neighboring gene tolloid like 1 Neighboring gene RNA, 5S ribosomal pseudogene 170 Neighboring gene RNA, 5S ribosomal pseudogene 171 Neighboring gene RNA, 7SL, cytoplasmic 776, pseudogene Neighboring gene prohibitin pseudogene 14

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide analysis of polymorphisms associated with cytokine responses in smallpox vaccine recipients.
GeneReviews: Not available
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
glycosaminoglycan binding IEA
Inferred from Electronic Annotation
more info
 
metalloendopeptidase inhibitor activity TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
extracellular region IEA
Inferred from Electronic Annotation
more info
 

General protein information

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

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_030414.1 RefSeqGene

    Range
    5001..506207
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001040159.2NP_001035249.1  testican-3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001035249.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon compared to variant 2. The resulting isoform (1) has the same N- and C-termini but is shorter compared to isoform 2.
    Source sequence(s)
    AC020599, BC003017
    Consensus CDS
    CCDS34095.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000350153.4, ENST00000357545.9
    Conserved Domains (3) summary
    smart00280
    Location:137180
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:313377
    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:198310
    EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)
  2. NM_001204352.2NP_001191281.1  testican-3 isoform 3

    See identical proteins and their annotated locations for NP_001191281.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon, includes an alternate exon in the 5' coding region, and uses an alternate start codon, compared to variant 2. The encoded isoform (3) is shorter and has a distinct N-terminus, compared to isoform 2.
    Source sequence(s)
    AC020599, AK295015, BI603782
    Consensus CDS
    CCDS56344.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000411344.2, ENST00000421836.6
    Conserved Domains (4) summary
    smart00280
    Location:89132
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:265329
    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:149268
    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:148255
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  3. NM_001204353.1NP_001191282.1  testican-3 isoform 4

    See identical proteins and their annotated locations for NP_001191282.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, lacks two exons and uses a downstream, in-frame start codon, compared to variant 2. The encoded isoform (4) has a shorter N-terminus, compared to isoform 2.
    Source sequence(s)
    AC020599, AK295407
    Consensus CDS
    CCDS56343.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000444789.1, ENST00000541354.5
    Conserved Domains (4) summary
    smart00280
    Location:2063
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:196260
    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:80199
    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:79186
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  4. NM_001204354.2NP_001191283.1  testican-3 isoform 5

    See identical proteins and their annotated locations for NP_001191283.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two consecutive exons and uses a downstream, in-frame start codon, compared to variant 2. The encoded isoform (5) has a shorter N-terminus, compared to isoform 2.
    Source sequence(s)
    AC020599, AK091078, AK295414
    Consensus CDS
    CCDS75207.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    UniProtKB/TrEMBL
    A0A0A0MTJ2, B4DI52
    Related
    ENSP00000441396.2, ENST00000535728.5
    Conserved Domains (4) summary
    smart00280
    Location:4891
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:224288
    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:108227
    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:107214
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  5. NM_001204355.2NP_001191284.1  testican-3 isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks three consecutive coding exons and uses an alternate start codon, compared to variant 2. The encoded isoform (6) is shorter and has a distinct N-terminus, compared to isoform 2.
    Source sequence(s)
    AC020599, AK295281, BI603782
    UniProtKB/Swiss-Prot
    Q9BQ16
    Conserved Domains (4) summary
    smart00280
    Location:4487
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:220284
    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:104223
    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:103210
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  6. NM_001204356.2NP_001191285.1  testican-3 isoform 7 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks two alternate in-frame exons compared to variant 2. The resulting isoform (7) has the same N- and C-termini but is shorter compared to isoform 2.
    Source sequence(s)
    AC020599, AK296291, BI603782
    Consensus CDS
    CCDS56346.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000426716.1, ENST00000510741.5
    Conserved Domains (3) summary
    smart00280
    Location:137180
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:273337
    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:195276
    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 ...
  7. NM_001204358.2NP_001191287.1  testican-3 isoform 9 precursor

    See identical proteins and their annotated locations for NP_001191287.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks an alternate in-frame exon and differs in the 3' UTR and coding sequence compared to variant 2. The resulting isoform (9, also known as N-TES) has a shorter and distinct C-terminus and lacks an alternate internal segment compared to isoform 2.
    Source sequence(s)
    AB056866, AC020599
    Consensus CDS
    CCDS56347.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000426177.1, ENST00000512648.5
    Conserved Domains (3) summary
    smart00280
    Location:137180
    KAZAL; Kazal type serine protease inhibitors
    cd00252
    Location:197311
    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:196303
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  8. NM_001251967.2NP_001238896.1  testican-3 isoform 11 precursor

    See identical proteins and their annotated locations for NP_001238896.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) lacks four consecutive coding exons but maintains the reading frame, compared to variant 2. The encoded isoform (11) is shorter than isoform 2.
    Source sequence(s)
    AC020599, AK294637, BI603782
    Consensus CDS
    CCDS58931.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000426318.1, ENST00000512681.5
    Conserved Domains (3) summary
    cd00191
    Location:218282
    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:102221
    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:101208
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  9. NM_016950.3NP_058646.2  testican-3 isoform 2 precursor

    See identical proteins and their annotated locations for NP_058646.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) encodes the longest isoform (2).
    Source sequence(s)
    AC020599, AY358973
    Consensus CDS
    CCDS54817.1
    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000349677.3, ENST00000357154.7
    Conserved Domains (4) summary
    smart00280
    Location:140183
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:316380
    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:200319
    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:199306
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    166733384..167234869 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008258.1XP_016863747.1  testican-3 isoform X3

    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000425570.1, ENST00000504953.5
    Conserved Domains (3) summary
    smart00280
    Location:137180
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:313377
    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:198310
    EFh_SPARC_TICN3; EF-hand, extracellular calcium-binding (EC) motif, found in testican-3 (TICN3)
  2. XM_011532018.1XP_011530320.1  testican-3 isoform X2

    See identical proteins and their annotated locations for XP_011530320.1

    UniProtKB/Swiss-Prot
    Q9BQ16
    Related
    ENSP00000420920.1, ENST00000506886.5
    Conserved Domains (4) summary
    smart00280
    Location:140183
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:316380
    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:200319
    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:199306
    SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region
  3. XM_017008257.1XP_016863746.1  testican-3 isoform X1

    Related
    ENSP00000425502.1, ENST00000511269.5

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001204359.1: Suppressed sequence

    Description
    NM_001204359.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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