U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Chpf chondroitin polymerizing factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316533, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Chpfprovided by RGD
    Official Full Name
    chondroitin polymerizing factorprovided by RGD
    Primary source
    RGD:1359458
    See related
    EnsemblRapid:ENSRNOG00000020038 AllianceGenome:RGD:1359458
    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
    D1bwg1363e
    Summary
    Predicted to enable N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity and glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. Predicted to be involved in chondroitin sulfate biosynthetic process. Predicted to be located in Golgi cisterna membrane. Predicted to be active in Golgi apparatus. Orthologous to human CHPF (chondroitin polymerizing factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 163.1), Brain (RPKM 132.9) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Chpf in Genome Data Viewer
    Location:
    9q33
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (84411824..84416523, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (76963178..76967878, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (82669199..82673898, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094714 Neighboring gene acid sensing ion channel subunit family member 4 Neighboring gene uncharacterized LOC134480596 Neighboring gene transmembrane protein 198 Neighboring gene obscurin like cytoskeletal adaptor 1 Neighboring gene inhibin subunit alpha

    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. Chondroitin sulfate synthase-2. Molecular cloning and characterization of a novel human glycosyltransferase homologous to chondroitin sulfate glucuronyltransferase, which has dual enzymatic activities. Yada T, et al. J Biol Chem, 2003 Aug 8. PMID 12761225
    2. Gene network and pathway analysis of mice with conditional ablation of Dicer in post-mitotic neurons. Dorval V, et al. PLoS One, 2012. PMID 22952873, Free PMC Article
    3. Molecular cloning of a chondroitin polymerizing factor that cooperates with chondroitin synthase for chondroitin polymerization. Kitagawa H, et al. J Biol Chem, 2003 Jun 27. PMID 12716890
    4. Chondroitin sulfate synthase-2 is necessary for chain extension of chondroitin sulfate but not critical for skeletal development. Ogawa H, et al. PLoS One, 2012. PMID 22952769, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC94386

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables glycosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in chondroitin sulfate biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within chondroitin sulfate biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondroitin sulfate biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi cisterna membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    chondroitin sulfate synthase 2
    NP_001005906.1
    XP_006245290.1

    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_001005906.1 → NP_001005906.1  chondroitin sulfate synthase 2

      See identical proteins and their annotated locations for NP_001005906.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083617
      UniProtKB/TrEMBL
      F7F860, Q5XIQ8
      Related
      ENSRNOP00000027165.3, ENSRNOT00000027165.5
      Conserved Domains (2) summary
      pfam05679
      Location:258 → 757
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
      cl21608
      Location:190 → 279
      Galactosyl_T; Galactosyltransferase

    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_086027.1 Reference GRCr8

      Range
      84411824..84416523 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006245228.4 → XP_006245290.1  chondroitin sulfate synthase 2 isoform X1

      Conserved Domains (2) summary
      pfam05679
      Location:100 → 599
      CHGN; Chondroitin N-acetylgalactosaminyltransferase
      cl21608
      Location:32 → 121
      Galactosyl_T; Galactosyltransferase
    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.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous