Sdc1 syndecan 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sdc1provided by RGD
Official Full Name: syndecan 1provided by RGD
Primary source: RGD:3648
See related: Ensembl:ENSRNOG00000059947 AllianceGenome:RGD:3648
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: HSPG; Synd1; SYNDECA; Syndecan
Summary: Predicted to enable identical protein binding activity and protein C-terminus binding activity. Involved in several processes, including animal organ development; response to cAMP; and response to hydrogen peroxide. Part of protein-containing complex. Used to study familial hyperlipidemia. Biomarker of myocardial infarction; obesity; and proteinuria. Orthologous to human SDC1 (syndecan 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 457.9), Liver (RPKM 379.7) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q14

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (37282041..37304503)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (31562799..31585267)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (33885576..33908038)

Chromosome 6 - NC_086024.1 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Expression of syndecan-1, PKC and VEGF in rats with acute kidney injury and correlation between syndecan-1 and renal function.
Title: Expression of syndecan-1, PKC and VEGF in rats with acute kidney injury and correlation between syndecan-1 and renal function.
Plasma syndecan-1 and heparan sulfate correlate with microvascular glycocalyx degradation in hemorrhaged rats after different resuscitation fluids.
Title: Plasma syndecan-1 and heparan sulfate correlate with microvascular glycocalyx degradation in hemorrhaged rats after different resuscitation fluids.
down-regulation of Syndecan-1 could inhibit VEGF-VEGFR-2 signaling through regulating internalization of VEGFR-2.
Title: Downregulation of Syndecan-1 induce glomerular endothelial cell dysfunction through modulating internalization of VEGFR-2.
expression upregulated two months after renal transplantation
Title: Incipient renal transplant dysfunction associates with tubular syndecan-1 expression and shedding.
data suggest that after renal transplantation loss of hepatic HS together with increased syndecan-1 shedding hampers lipoprotein binding and uptake by the liver contributing to dyslipidemia
Title: Hepatic syndecan-1 changes associate with dyslipidemia after renal transplantation.
analysis of the molecular events that drive endocytosis of syndecan-1, a raft-dependent receptor and identification of its novel endocytic motif, MKKK
Title: Molecular mediators for raft-dependent endocytosis of syndecan-1, a highly conserved, multifunctional receptor.
The abnormal expression of HSPG may be an important molecular mechanism that leads to the occurrence and development of proteinuria in adriamycin-induced nephropathy rats.
Title: [Effects of qufengtongluo recipe on expressions of HSPG mRNA and protein in adriamycin-induced nephropathy rats].
The major injury-related change, seen in injured brain and cultured glia, was an increase in 2-O-sulphated HS and increased syndecan-1, suggesting novel approaches to modulating scar formation.
Title: Heparan sulphate proteoglycans in glia and in the normal and injured CNS: expression of sulphotransferases and changes in sulphation.
Syndecan-1 mRNA expression is not modulated by FSH as it would result from the antagonistic effects of increased intracellular cAMP and intracellular calcium levels.
Title: Regulation of glypican-1, syndecan-1 and syndecan-4 mRNAs expression by follicle-stimulating hormone, cAMP increase and calcium influx during rat Sertoli cell development.
role in regulatory mechanism of apoptosis
Title: [Induction of syndecan-1 expression in parietal cells during gastric mucosal injury by NSAIDs].

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cargo receptor activity	ISO Inferred from Sequence Orthology more info
enables extracellular matrix binding	TAS Traceable Author Statement 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
involved_in Sertoli cell development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion	NAS Non-traceable Author Statement more info	PubMed
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell signaling	NAS Non-traceable Author Statement more info	PubMed
involved_in myoblast development	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in response to cAMP	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to calcium ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to glucocorticoid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hydrogen peroxide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in striated muscle cell development	ISO Inferred from Sequence Orthology more info
involved_in ureteric bud development	IEP Inferred from Expression Pattern more info	PubMed

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

General protein information

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Preferred Names: syndecan-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.