Sdc1 syndecan 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sdc1provided by MGI
Official Full Name: syndecan 1provided by MGI
Primary source: MGI:MGI:1349162
See related: Ensembl:ENSMUSG00000020592 AllianceGenome:MGI:1349162
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Sstn; Synd; CD138; Synd1; syn-1
Summary: Predicted to enable identical protein binding activity and protein C-terminus binding activity. Involved in myoblast development. Acts upstream of or within canonical Wnt signaling pathway. Located in external side of plasma membrane. Is expressed in several structures, including alimentary system; egg cylinder; sensory organ; skin; and urinary system. Orthologous to human SDC1 (syndecan 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in liver adult (RPKM 110.4), bladder adult (RPKM 76.1) and 19 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12 A1.1; 12 3.94 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (8821396..8843716)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (8771396..8793716)

Chromosome 12 - NC_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Syndecan-1 as the Effect or Effector of the Endothelial Inflammatory Response?
Title: Syndecan-1 as the Effect or Effector of the Endothelial Inflammatory Response?
CircKIF4A combines EIF4A3 to stabilize SDC1 expression to activate c-src/FAK and promotes TNBC progression.
Title: CircKIF4A combines EIF4A3 to stabilize SDC1 expression to activate c-src/FAK and promotes TNBC progression.
3-O sulfation of syndecan-1 mediated by the sulfotransferase HS3ST3a1 enhances myeloma aggressiveness.
Title: 3-O sulfation of syndecan-1 mediated by the sulfotransferase HS3ST3a1 enhances myeloma aggressiveness.
HIF-1alpha promotes the expression of syndecan-1 and inhibits the NLRP3 inflammasome pathway in vascular endothelial cells under hemorrhagic shock.
Title: HIF-1α promotes the expression of syndecan-1 and inhibits the NLRP3 inflammasome pathway in vascular endothelial cells under hemorrhagic shock.
CD138 expression is a molecular signature but not a developmental requirement for RORgammat+ NKT17 cells.
Title: CD138 expression is a molecular signature but not a developmental requirement for RORγt+ NKT17 cells.
Syndecan-1 and Glypican-1 Knockout Alters Body Water Balance and Urine Response to Fluid Challenge in Mice.
Title: Syndecan-1 and Glypican-1 Knockout Alters Body Water Balance and Urine Response to Fluid Challenge in Mice.
Syndecan-1 Amplifies Ovalbumin-Induced Airway Remodeling by Strengthening TGFbeta1/Smad3 Action.
Title: Syndecan-1 Amplifies Ovalbumin-Induced Airway Remodeling by Strengthening TGFβ1/Smad3 Action.
Circulating CD138 enhances disease progression by augmenting autoreactive antibody production in a mouse model of systemic lupus erythematosus.
Title: Circulating CD138 enhances disease progression by augmenting autoreactive antibody production in a mouse model of systemic lupus erythematosus.
High molecular weight sodium hyaluronate improves survival of syndecan-1-deficient septic mice by inhibiting neutrophil migration.
Title: High molecular weight sodium hyaluronate improves survival of syndecan-1-deficient septic mice by inhibiting neutrophil migration.
Syndecan-1 Promotes Streptococcus pneumoniae Corneal Infection by Facilitating the Assembly of Adhesive Fibronectin Fibrils.
Title: Syndecan-1 Promotes Streptococcus pneumoniae Corneal Infection by Facilitating the Assembly of Adhesive Fibronectin Fibrils.

Submit: New GeneRIF Correction See all GeneRIFs (121)

Variation

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Alleles

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

Targeted (1) 1 citation
Endonuclease-mediated (7)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D12Mit104 (e-PCR), detects polymorphism
- UniSTS:141851

RH124819 (e-PCR)
- UniSTS:161641

Sdc1 (e-PCR), detects polymorphism
- UniSTS:466044

D1191 (e-PCR)
- UniSTS:126653

D12Mit104.2 (e-PCR), detects polymorphism
- UniSTS:126654

RH124670 (e-PCR)
- UniSTS:161492

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables cargo receptor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in myoblast development	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of exosomal secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of extracellular exosome assembly	ISO Inferred from Sequence Orthology more info
involved_in receptor-mediated endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi lumen	TAS Traceable Author Statement more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in external side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	TAS Traceable Author Statement more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IMP Inferred from Mutant Phenotype more info	PubMed
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: syndecan-1

Names: synstatin

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_011519.2 → NP_035649.1 syndecan-1 precursor

See identical proteins and their annotated locations for NP_035649.1

Status: PROVISIONAL

Source sequence(s)

AC154906

Consensus CDS

CCDS25803.1

UniProtKB/Swiss-Prot

P18828, Q62278, Q9WVD2

UniProtKB/TrEMBL

Q3THY2, Q3V1F2

Related

ENSMUSP00000020911.8, ENSMUST00000020911.14

Conserved Domains (1) summary

pfam01034
Location:246 → 309

Syndecan; Syndecan 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

8821396..8843716

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006515045.1 → XP_006515108.1 syndecan-1 isoform X1

UniProtKB/TrEMBL

Q3THY2

Conserved Domains (2) summary

PHA03247
Location:2 → 170

PHA03247; large tegument protein UL36; Provisional

pfam01034
Location:237 → 300

Syndecan; Syndecan domain
XM_006515046.2 → XP_006515109.1 syndecan-1 isoform X2

UniProtKB/TrEMBL

Q3THY2

Conserved Domains (1) summary

pfam01034
Location:227 → 290

Syndecan; Syndecan domain