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Sdc2 syndecan 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 25615, updated on 4-Jan-2025

Summary

Official Symbol
Sdc2provided by RGD
Official Full Name
syndecan 2provided by RGD
Primary source
RGD:3649
See related
AllianceGenome:RGD:3649
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
Summary
Enables PDZ domain binding activity and identical protein binding activity. Involved in several processes, including dendrite morphogenesis; regulation of synapse organization; and response to caffeine. Located in neuronal cell body. Is active in glutamatergic synapse; postsynaptic membrane; and presynaptic membrane. Human ortholog(s) of this gene implicated in cleft lip and cleft palate. Orthologous to human SDC2 (syndecan 2). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Liver (RPKM 916.6), Kidney (RPKM 518.2) and 7 other tissues See more
Orthologs
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Genomic context

See Sdc2 in Genome Data Viewer
Location:
7q22
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (66012405..66125101)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (64127185..64239885)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (71572731..71686139)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479601 Neighboring gene LIM domain kinase 2, pseudogene 1 Neighboring gene carboxypeptidase Q Neighboring gene translationally-controlled tumor protein pseudogene Neighboring gene U6 spliceosomal RNA

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

General gene information

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables PDZ domain binding  
enables PDZ domain binding PubMed 
enables PDZ domain binding  
enables identical protein binding  
enables identical protein binding PubMed 
enables identical protein binding  
enables protein binding PubMed 
Process Evidence Code Pubs
involved_in cell migration  
involved_in dendrite morphogenesis  
involved_in dendrite morphogenesis PubMed 
involved_in regulation of dendrite morphogenesis  
involved_in regulation of dendrite morphogenesis  
involved_in regulation of synapse assembly PubMed 
involved_in regulation of synapse assembly PubMed 
involved_in regulation of synapse maturation PubMed 
involved_in regulation of synapse maturation PubMed 
involved_in response to caffeine PubMed 
involved_in response to hypoxia PubMed 
Component Evidence Code Pubs
is_active_in cell surface  
is_active_in glutamatergic synapse PubMed 
is_active_in glutamatergic synapse PubMed 
located_in membrane  
located_in neuronal cell body PubMed 
located_in plasma membrane  
located_in plasma membrane  
located_in plasma membrane  
is_active_in postsynaptic membrane PubMed 
is_active_in presynaptic membrane PubMed 

General protein information

Preferred Names
syndecan-2
Names
Ryudocan/syndecan 2
SYND2
fibroglycan
heparan sulfate proteoglycan core protein

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_013082.4NP_037214.1  syndecan-2 precursor

    See identical proteins and their annotated locations for NP_037214.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000007
    UniProtKB/Swiss-Prot
    P34900
    UniProtKB/TrEMBL
    A0A9K3Y7Q3, F8WFS4, Q6IRK3
    Conserved Domains (1) summary
    pfam01034
    Location:148209
    Syndecan; Syndecan domain

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_086025.1 Reference GRCr8

    Range
    66012405..66125101
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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