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

Gene ID: 316533, updated on 2-Nov-2024

Summary

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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, Nov 2024]
Expression
Biased expression in Adrenal (RPKM 163.1), Brain (RPKM 132.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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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

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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
  
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

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Preferred Names
chondroitin sulfate synthase 2
NP_001005906.1
XP_006245290.1

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.

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

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