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Sparcl1 SPARC-like 1 [ Mus musculus (house mouse) ]

Gene ID: 13602, updated on 1-Mar-2024

Summary

Official Symbol
Sparcl1provided by MGI
Official Full Name
SPARC-like 1provided by MGI
Primary source
MGI:MGI:108110
See related
Ensembl:ENSMUSG00000029309 AllianceGenome:MGI:108110
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
Sc1; Ecm2; hevin; mast9
Summary
Predicted to enable calcium ion binding activity; collagen binding activity; and extracellular matrix binding activity. Involved in synaptic membrane adhesion. Located in glutamatergic synapse. Is expressed in several structures, including cardiovascular system; central nervous system; male reproductive gland or organ; respiratory system; and sensory organ. Orthologous to human SPARCL1 (SPARC like 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in bladder adult (RPKM 525.6), cortex adult (RPKM 355.3) and 13 other tissues See more
Orthologs
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Genomic context

See Sparcl1 in Genome Data Viewer
Location:
5 E5; 5 50.55 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (104226974..104261954, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (104079108..104114088, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene nudix hydrolase 9 Neighboring gene predicted gene, 52783 Neighboring gene secretory calcium-binding phosphoprotein proline-glutamine rich 1 Neighboring gene STARR-seq mESC enhancer starr_13821 Neighboring gene predicted gene, 26703 Neighboring gene STARR-seq mESC enhancer starr_13822 Neighboring gene oxysterol binding protein-like 9 pseudogene Neighboring gene dentin sialophosphoprotein

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in anatomical structure development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of synapse organization ISO
Inferred from Sequence Orthology
more info
 
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
 
involved_in synaptic membrane adhesion IDA
Inferred from Direct Assay
more info
PubMed 
involved_in synaptic membrane adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synaptic membrane adhesion IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in collagen-containing extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular matrix of synaptic cleft 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 IEA
Inferred from Electronic Annotation
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
is_active_in glutamatergic synapse IPI
Inferred from Physical Interaction
more info
PubMed 
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
SPARC-like protein 1
Names
SPARC-like 1 (mast9, hevin)
extracellular matrix protein 2
matrix glycoprotein Sc1

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_001359014.1NP_001345943.1  SPARC-like protein 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. All three variants encode the same protein.
    Source sequence(s)
    AL714024
    Consensus CDS
    CCDS19483.1
    UniProtKB/Swiss-Prot
    E9QPH2, P70663, P97810, Q99L82
    UniProtKB/TrEMBL
    Q3TYD5, Q3UYK7
    Conserved Domains (3) summary
    COG5271
    Location:60317
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
    cd16231
    Location:501641
    EFh_SPARC_like; EF-hand, extracellular calcium-binding (EC) motif, found in secreted protein acidic and rich in cysteine (SPARC) and similar proteins
    cl00097
    Location:419498
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
  2. NM_001359016.1NP_001345945.1  SPARC-like protein 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AL714024
    Consensus CDS
    CCDS19483.1
    UniProtKB/Swiss-Prot
    E9QPH2, P70663, P97810, Q99L82
    UniProtKB/TrEMBL
    Q3TYD5, Q3UYK7
    Conserved Domains (3) summary
    COG5271
    Location:60317
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
    cd16231
    Location:501641
    EFh_SPARC_like; EF-hand, extracellular calcium-binding (EC) motif, found in secreted protein acidic and rich in cysteine (SPARC) and similar proteins
    cl00097
    Location:419498
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
  3. NM_010097.4NP_034227.3  SPARC-like protein 1 precursor

    See identical proteins and their annotated locations for NP_034227.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
    Source sequence(s)
    AK134608, AK158725, BY277497, CD742522
    Consensus CDS
    CCDS19483.1
    UniProtKB/Swiss-Prot
    E9QPH2, P70663, P97810, Q99L82
    UniProtKB/TrEMBL
    Q3TYD5, Q3UYK7
    Related
    ENSMUSP00000031249.4, ENSMUST00000031249.8
    Conserved Domains (3) summary
    COG5271
    Location:60317
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
    cd16231
    Location:501641
    EFh_SPARC_like; EF-hand, extracellular calcium-binding (EC) motif, found in secreted protein acidic and rich in cysteine (SPARC) and similar proteins
    cl00097
    Location:419498
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    104226974..104261954 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036164777.1XP_036020670.1  SPARC-like protein 1 isoform X1

    UniProtKB/Swiss-Prot
    E9QPH2, P70663, P97810, Q99L82
    UniProtKB/TrEMBL
    Q3TYD5, Q3UYK7
    Conserved Domains (3) summary
    COG5271
    Location:60317
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
    cd16231
    Location:501641
    EFh_SPARC_like; EF-hand, extracellular calcium-binding (EC) motif, found in secreted protein acidic and rich in cysteine (SPARC) and similar proteins
    cl00097
    Location:419498
    KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...