U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Cspg4b chondroitin sulfate proteoglycan 4B [ Rattus norvegicus (Norway rat) ]

Gene ID: 294747, updated on 30-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
Cspg4bprovided by RGD
Official Full Name
chondroitin sulfate proteoglycan 4Bprovided by RGD
Primary source
RGD:1561161
See related
Ensembl:ENSRNOG00000039582 AllianceGenome:RGD:1561161
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1561161
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 146.9), Muscle (RPKM 98.0) and 8 other tissues See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
2q14
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (46673142..46743288)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (44939807..45008284)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (45182391..45241179)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134485841 Neighboring gene endothelial cell-specific molecule 1 Neighboring gene uncharacterized LOC120100709 Neighboring gene uncharacterized LOC134485842

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. The novel testicular enrichment protein Cfap58 is required for Notch-associated ciliogenesis. Li ZZ, et al. Biosci Rep, 2020 Jan 31. PMID 31904090, Free PMC Article

GeneRIFs: Gene References Into Functions

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
chondroitin sulfate proteoglycan 4B

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001134510.2 → NP_001127982.2  chondroitin sulfate proteoglycan 4B precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A0A0G2K8H2, D4AE71
    Related
    ENSRNOP00000074606.1, ENSRNOT00000085826.2
    Conserved Domains (2) summary
    cd00110
    Location:26 → 175
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam16184
    Location:1299 → 1406
    Cadherin_3; Cadherin-like

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_086020.1 Reference GRCr8

    Range
    46673142..46743288
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039101941.2 → XP_038957869.1  chondroitin sulfate proteoglycan 4B isoform X4

    UniProtKB/TrEMBL
    A6I5R3
    Conserved Domains (2) summary
    cd00110
    Location:26 → 175
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam16184
    Location:1299 → 1406
    Cadherin_3; Cadherin-like

  2. XM_039101939.2 → XP_038957867.1  chondroitin sulfate proteoglycan 4B isoform X1

    UniProtKB/TrEMBL
    D4AE71
    Conserved Domains (2) summary
    cd00110
    Location:26 → 175
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam16184
    Location:1497 → 1602
    Cadherin_3; Cadherin-like

  3. XM_039101942.2 → XP_038957870.1  chondroitin sulfate proteoglycan 4B isoform X5

    Conserved Domains (2) summary
    pfam16184
    Location:112 → 219
    Cadherin_3; Cadherin-like
    cl22861
    Location:26 → 82
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

  4. XM_063281517.1 → XP_063137587.1  chondroitin sulfate proteoglycan 4B isoform X3

  5. XM_039101940.2 → XP_038957868.1  chondroitin sulfate proteoglycan 4B isoform X2

    UniProtKB/TrEMBL
    D4AE71
    Conserved Domains (1) summary
    pfam16184
    Location:994 → 1101
    Cadherin_3; Cadherin-like
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.