U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Cspg5 chondroitin sulfate proteoglycan 5 [ Mus musculus (house mouse) ]

Gene ID: 29873, updated on 13-Oct-2022

Summary

Official Symbol
Cspg5provided by MGI
Official Full Name
chondroitin sulfate proteoglycan 5provided by MGI
Primary source
MGI:MGI:1352747
See related
Ensembl:ENSMUSG00000032482 AllianceGenome:MGI:1352747
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Ngc; Caleb
Summary
This gene encodes a chondroitin sulfate proteoglycan. The encoded protein has been termed a 'part-time' proteoglycan, as chondroitin sulfate chains appear to be attached to the protein in the developing but not the adult cerebellum and retina. It is thought that this protein plays roles in dendrite branching and synapse formation. [provided by RefSeq, Oct 2009]
Expression
Biased expression in frontal lobe adult (RPKM 51.3), cortex adult (RPKM 50.7) and 7 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Cspg5 in Genome Data Viewer
Location:
9; 9 F2
Exon count:
5
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (110072851..110091644)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (110243783..110262576)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1 Neighboring gene 4.5s RNA, pseudogene 2 Neighboring gene predicted gene, 39429 Neighboring gene microRNA 6236 Neighboring gene tropomyosin beta chain pseudogene Neighboring gene elongator acetyltransferase complex subunit 6

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)
  • Gene trapped (1) 
  • Targeted (5)  1 citation
  • Endonuclease-mediated (3) 

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Component Evidence Code Pubs
is_active_in GABA-ergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in GABA-ergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in Golgi-associated vesicle membrane ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum 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 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in postsynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
chondroitin sulfate proteoglycan 5
Names
acidic leucine-rich EGF-like domain-containing brain protein
neuroglycan C

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001166273.1NP_001159745.1  chondroitin sulfate proteoglycan 5 isoform b precursor

    See identical proteins and their annotated locations for NP_001159745.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a longer protein (isoform b), compared to isoform a. Isoform b is also known as NGC-III and mCALEBb. Variant 2 contains an in-frame start site 223 codons upstream from the currently annotated site, but Kozak sequence and signal peptide considerations support use of the downstream AUG.
    Source sequence(s)
    AC159372, AF461092, BC055736
    Consensus CDS
    CCDS52936.1
    UniProtKB/Swiss-Prot
    Q71M36, Q9QY32
    Related
    ENSMUSP00000035058.6, ENSMUST00000035058.10
    Conserved Domains (2) summary
    pfam06566
    Location:33273
    Chon_Sulph_att; Chondroitin sulphate attachment domain
    pfam06567
    Location:447565
    Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain
  2. NM_013884.3NP_038912.3  chondroitin sulfate proteoglycan 5 isoform a precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the shorter isoform (a), also known as NGC-I and mCALEBa. Variant 1 contains an in-frame start site 223 codons upstream from the currently annotated site, but Kozak sequence and signal peptide considerations support use of the downstream AUG.
    Source sequence(s)
    AC159372, AF133700, AF461090, BC055736
    Consensus CDS
    CCDS81085.1
    UniProtKB/Swiss-Prot
    Q71M36
    Related
    ENSMUSP00000143164.2, ENSMUST00000196060.5
    Conserved Domains (2) summary
    pfam06566
    Location:33273
    Chon_Sulph_att; Chondroitin sulphate attachment domain
    pfam06567
    Location:447538
    Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    110072851..110091644
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)