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Smoc1 SPARC related modular calcium binding 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 314280, updated on 4-Jan-2025

Summary

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Official Symbol
Smoc1provided by RGD
Official Full Name
SPARC related modular calcium binding 1provided by RGD
Primary source
RGD:1303126
See related
EnsemblRapid:ENSRNOG00000005998 AllianceGenome:RGD:1303126
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable extracellular matrix binding activity and heparin binding activity. Predicted to be involved in several processes, including extracellular matrix organization; limb development; and regulation of osteoblast differentiation. Predicted to act upstream of or within positive regulation of cell-substrate adhesion. Predicted to be active in basement membrane and extracellular space. Human ortholog(s) of this gene implicated in microphthalmia with limb anomalies. Orthologous to human SMOC1 (SPARC related modular calcium binding 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Adrenal (RPKM 178.0), Liver (RPKM 170.3) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Smoc1 in Genome Data Viewer
Location:
6q24
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (106432592..106593956)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (100701330..100897441)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (104718403..104879611)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 10 member 1 Neighboring gene phospholipase A2 group IB like 1 Neighboring gene uncharacterized LOC120103570 Neighboring gene uncharacterized LOC120103571 Neighboring gene uncharacterized LOC134479222 Neighboring gene solute carrier family 8 member A3 Neighboring gene cytochrome c oxidase assembly factor COX16 Neighboring gene a disintegrin and metallopeptidase domain 4-like 1

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. Secretome analysis of human BMSCs and identification of SMOC1 as an important ECM protein in osteoblast differentiation. Choi YA, et al. J Proteome Res, 2010 Jun 4. PMID 20359165
  2. Nitric oxide inhibits glomerular TGF-beta signaling via SMOC-1. Dreieicher E, et al. J Am Soc Nephrol, 2009 Sep. PMID 19578009, Free PMC Article
  3. Characterization of SMOC-1, a novel modular calcium-binding protein in basement membranes. Vannahme C, et al. J Biol Chem, 2002 Oct 11. PMID 12130637
  4. Reduced CircSMOC1 Level Promotes Metabolic Reprogramming via PTBP1 (Polypyrimidine Tract-Binding Protein) and miR-329-3p in Pulmonary Arterial Hypertension Rats. Lu GF, et al. Hypertension, 2022 Nov. PMID 35997022
  5. SMOC1 is essential for ocular and limb development in humans and mice. Okada I, et al. Am J Hum Genet, 2011 Jan 7. PMID 21194678, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Reduced CircSMOC1 Level Promotes Metabolic Reprogramming via PTBP1 (Polypyrimidine Tract-Binding Protein) and miR-329-3p in Pulmonary Arterial Hypertension Rats.
    Title: Reduced CircSMOC1 Level Promotes Metabolic Reprogramming via PTBP1 (Polypyrimidine Tract-Binding Protein) and miR-329-3p in Pulmonary Arterial Hypertension Rats.
  2. NO attenuates SMOC-1 expression in acute glomerular inflammation, thereby limiting TGF-beta-mediated profibrotic signaling
    Title: Nitric oxide inhibits glomerular TGF-beta signaling via SMOC-1.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables extracellular matrix binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables extracellular matrix binding ISO
Inferred from Sequence Orthology
more info
  
enables heparin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within extracellular matrix organization ISO
Inferred from Sequence Orthology
more info
  
involved_in eye development ISO
Inferred from Sequence Orthology
more info
  
involved_in limb development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of cell-substrate adhesion ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
SPARC-related modular calcium-binding protein 1
Names
SPARC-related modular calcium binding protein 1

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_001002835.2 → NP_001002835.1  SPARC-related modular calcium-binding protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001002835.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006
    UniProtKB/TrEMBL
    A6JDL6, F1LSF2, Q6IE50
    Conserved Domains (5) summary
    smart00280
    Location:42 → 86
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:225 → 291
    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:363 → 424
    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 ...
    pfam00086
    Location:94 → 157
    Thyroglobulin_1; Thyroglobulin type-1 repeat
    pfam16597
    Location:158 → 216
    Thyroglob_assoc; Thyroglobulin_1 repeat associated disordered domain

  2. NM_001412316.1 → NP_001399245.1  SPARC-related modular calcium-binding protein 1 isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006
    UniProtKB/TrEMBL
    A0A8I6A4M6, A6JDL6
    Related
    ENSRNOP00000086850.1, ENSRNOT00000114143.2

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_086024.1 Reference GRCr8

    Range
    106432592..106593956
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063261932.1 → XP_063118002.1  SPARC-related modular calcium-binding protein 1 isoform X3

  2. XM_006240284.5 → XP_006240346.1  SPARC-related modular calcium-binding protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZYF0, A6JDL6
    Conserved Domains (5) summary
    smart00280
    Location:42 → 86
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:236 → 302
    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:374 → 435
    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 ...
    pfam00086
    Location:94 → 157
    Thyroglobulin_1; Thyroglobulin type-1 repeat
    pfam16597
    Location:158 → 227
    Thyroglob_assoc; Thyroglobulin_1 repeat associated disordered domain

  3. XM_006240285.5 → XP_006240347.1  SPARC-related modular calcium-binding protein 1 isoform X2

    UniProtKB/TrEMBL
    A6JDL6
    Conserved Domains (5) summary
    smart00280
    Location:42 → 86
    KAZAL; Kazal type serine protease inhibitors
    cd00191
    Location:236 → 302
    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:374 → 435
    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 ...
    pfam00086
    Location:94 → 157
    Thyroglobulin_1; Thyroglobulin type-1 repeat
    pfam16597
    Location:158 → 227
    Thyroglob_assoc; Thyroglobulin_1 repeat associated disordered domain

  4. XM_063261933.1 → XP_063118003.1  SPARC-related modular calcium-binding protein 1 isoform X4

Nucleotide Protein Strain
Heading Accession and Version

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