Smoc1 SPARC related modular calcium binding 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Smoc1provided by MGI
Official Full Name: SPARC related modular calcium binding 1provided by MGI
Primary source: MGI:MGI:1929878
See related: Ensembl:ENSMUSG00000021136 AllianceGenome:MGI:1929878
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: SRG; 2600002F22Rik
Summary: Enables extracellular matrix binding activity. Involved in eye development and limb development. Acts upstream of or within extracellular matrix organization and positive regulation of cell-substrate adhesion. Located in basement membrane. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; hindlimb; and sensory organ. Used to study microphthalmia with limb anomalies. 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, Nov 2024]
Expression: Biased expression in adrenal adult (RPKM 114.5), subcutaneous fat pad adult (RPKM 35.9) and 12 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12 D1; 12 37.28 cM

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (81073582..81233188)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (81026808..81186414)

Chromosome 12 - NC_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Smoc1 and Smoc2 regulate bone formation as downstream molecules of Runx2.
Title: Smoc1 and Smoc2 regulate bone formation as downstream molecules of Runx2.
Fasting before or after wound injury accelerates wound healing through the activation of pro-angiogenic SMOC1 and SCG2.
Title: Fasting before or after wound injury accelerates wound healing through the activation of pro-angiogenic SMOC1 and SCG2.
SMOC1 is an activin-like kinase antagonist produced by endothelial cells that tips TGF-beta signalling towards ALK1 activation
Title: Role of secreted modular calcium-binding protein 1 (SMOC1) in transforming growth factor β signalling and angiogenesis.
The heparin-binding activity of secreted modular calcium-binding protein 1 (SMOC-1) modulates its cell adhesion properties.
Title: The heparin-binding activity of secreted modular calcium-binding protein 1 (SMOC-1) modulates its cell adhesion properties.
these findings indicate that SMOC1/Smoc1 is essential for ocular and limb development in both humans and mice.
Title: SMOC1 is essential for ocular and limb development in humans and mice.
SMOC1 and SMOC2 may mediate intercellular signaling and cell type-specific differentiation during gonad and reproductive tract development
Title: Developmental expression of Smoc1 and Smoc2 suggests potential roles in fetal gonad and reproductive tract differentiation.
expression of SMOC-1 examined in the early embryo day 7, as well as in following embryonic stages on days 12, 14, 16 & 18; broad and organ-specific distribution suggests multifunctional roles of SMOC-1 during mouse embryogenesis
Title: Secreted modular calcium-binding protein-1 localization during mouse embryogenesis.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (4) 1 citation
Transposon induced (1) 1 citation

General gene information

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Markers

NoName (e-PCR)
- UniSTS:236895

AI848508 (e-PCR)
- UniSTS:180418

Gene Ontology Provided by MGI

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	IDA Inferred from Direct Assay more info	PubMed
enables heparin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within extracellular matrix organization	IDA Inferred from Direct Assay more info	PubMed
involved_in eye development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in eye development	ISO Inferred from Sequence Orthology more info
involved_in limb development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in limb development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell-substrate adhesion	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
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

General protein information

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

Names: SMOC-1; SPARC-related gene protein; SPARC-related protein; secreted 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)

NM_001146217.1 → NP_001139689.1 SPARC-related modular calcium-binding protein 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_001139689.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AC124384, AK040931

Consensus CDS

CCDS49102.1

UniProtKB/TrEMBL

A0A0R4J1E4, D3Z3A3

Related

ENSMUSP00000105976.3, ENSMUST00000110347.9

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
NM_022316.2 → NP_071711.2 SPARC-related modular calcium-binding protein 1 isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region compared to variant 1. This results in a shorter protein (isoform 2) compared to isoform 1.

Source sequence(s)

AC124384, AK040931

Consensus CDS

CCDS26017.1

UniProtKB/TrEMBL

D3Z3A3, E9QKW2

Related

ENSMUSP00000021564.5, ENSMUST00000021564.11

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

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

NC_000078.7 Reference GRCm39 C57BL/6J

Range

81073582..81233188

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006516135.5 → XP_006516198.1 SPARC-related modular calcium-binding protein 1 isoform X1

UniProtKB/TrEMBL

D3Z3A3

Conserved Domains (4) summary

cd16240
Location:318 → 432

EFh_SPARC_SMOC1; EF-hand, extracellular calcium-binding (EC) motif, found in secreted modular calcium-binding protein 1 (SMOC-1)

pfam00086
Location:87 → 150

Thyroglobulin_1; Thyroglobulin type-1 repeat

pfam07648
Location:35 → 79

Kazal_2; Kazal-type serine protease inhibitor domain

pfam16597
Location:151 → 222

Thyroglob_assoc; Thyroglobulin_1 repeat associated disordered domain