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    Cpt1c carnitine palmitoyltransferase 1c [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308579, updated on 2-May-2024

    Summary

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    Official Symbol
    Cpt1cprovided by RGD
    Official Full Name
    carnitine palmitoyltransferase 1cprovided by RGD
    Primary source
    RGD:1305384
    See related
    Ensembl:ENSRNOG00000026163 AllianceGenome:RGD:1305384
    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
    CPT IC; CPT1-B; CPTI-B; CPT I-C
    Summary
    Enables carnitine O-palmitoyltransferase activity. Involved in carnitine metabolic process. Located in endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 73. Orthologous to human CPT1C (carnitine palmitoyltransferase 1C). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 59.9), Muscle (RPKM 19.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cpt1c in Genome Data Viewer
    Location:
    1q22
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (104579297..104593824, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (95442814..95457347, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (100955094..100970579, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene fuzzy planar cell polarity protein Neighboring gene adaptor related protein complex 2 subunit alpha 1 Neighboring gene transfer RNA proline (anticodon AGG) 45 Neighboring gene testis-specific serine kinase substrate Neighboring gene protein arginine methyltransferase 1 Neighboring gene Bcl2 like 12 Neighboring gene interferon regulatory factor 3

    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
    • 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. Novel Regulation of the Synthesis of α-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid (AMPA) Receptor Subunit GluA1 by Carnitine Palmitoyltransferase 1C (CPT1C) in the Hippocampus. Fadó R, et al. J Biol Chem, 2015 Oct 16. PMID 26338711, Free PMC Article
    2. Ceramide levels regulated by carnitine palmitoyltransferase 1C control dendritic spine maturation and cognition. Carrasco P, et al. J Biol Chem, 2012 Jun 15. PMID 22539351, Free PMC Article
    3. CPT1c is localized in endoplasmic reticulum of neurons and has carnitine palmitoyltransferase activity. Sierra AY, et al. J Biol Chem, 2008 Mar 14. PMID 18192268
    4. The CPT1C 5'UTR contains a repressing upstream open reading frame that is regulated by cellular energy availability and AMPK. Lohse I, et al. PLoS One, 2011. PMID 21961029, Free PMC Article
    5. Mutation in CPT1C Associated With Pure Autosomal Dominant Spastic Paraplegia. Rinaldi C, et al. JAMA Neurol, 2015 May. PMID 25751282, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Accumulation of 3-hydroxylated intermediates of long-chain fatty acids may contribute to the pathogenesis of retinopathy in MTP deficiencies.
      Title: Carnitine palmitoyltransferase I and Acyl-CoA dehydrogenase 9 in retina: insights of retinopathy in mitochondrial trifunctional protein defects.
    2. CPT1c is localized in endoplasmic reticulum of neurons and has carnitine palmitoyltransferase activity
      Title: CPT1c is localized in endoplasmic reticulum of neurons and has carnitine palmitoyltransferase activity.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC125142

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables O-acyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT enables carnitine O-palmitoyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables carnitine O-palmitoyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables palmitoyl-(protein) hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables palmitoyl-(protein) hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables palmitoyl-(protein) hydrolase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in carnitine metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT involved_in carnitine metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in carnitine metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in fatty acid beta-oxidation IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT involved_in fatty acid metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in macromolecule depalmitoylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of AMPA glutamate receptor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of AMPA glutamate receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axon IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axon ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in postsynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    palmitoyl thioesterase CPT1C
    Names
    carnitine palmitoyltransferase I
    NP_001030097.2
    XP_006229128.1
    XP_017444628.1
    XP_038968035.1
    XP_038968045.1
    XP_038968052.1
    XP_063118074.1

    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_001034925.2 → NP_001030097.2  palmitoyl thioesterase CPT1C

      See identical proteins and their annotated locations for NP_001030097.2

      Status: VALIDATED

      Source sequence(s)
      BC105882, CB544967, CB698393, CB802617, CK598550, JAXUCZ010000001
      UniProtKB/Swiss-Prot
      F1LN46
      Conserved Domains (2) summary
      pfam00755
      Location:171 → 757
      Carn_acyltransf; Choline/Carnitine o-acyltransferase
      pfam16484
      Location:1 → 47
      CPT_N; Carnitine O-palmitoyltransferase N-terminus

    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_086019.1 Reference GRCr8

      Range
      104579297..104593824 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262004.1 → XP_063118074.1  palmitoyl thioesterase CPT1C isoform X3

    2. XM_006229066.4 → XP_006229128.1  palmitoyl thioesterase CPT1C isoform X1

      See identical proteins and their annotated locations for XP_006229128.1

      UniProtKB/TrEMBL
      A0A8L2QGW1, A6JAU6
      Related
      ENSRNOP00000032802.5
      Conserved Domains (2) summary
      pfam00755
      Location:171 → 758
      Carn_acyltransf; Choline/Carnitine o-acyltransferase
      pfam16484
      Location:1 → 46
      CPT_N; Carnitine O-palmitoyltransferase N-terminus

    3. XM_017589139.2 → XP_017444628.1  palmitoyl thioesterase CPT1C isoform X2

    4. XM_039112117.2 → XP_038968045.1  palmitoyl thioesterase CPT1C isoform X5

      Conserved Domains (1) summary
      pfam00755
      Location:1 → 503
      Carn_acyltransf; Choline/Carnitine o-acyltransferase

    5. XM_039112107.2 → XP_038968035.1  palmitoyl thioesterase CPT1C isoform X4

      Conserved Domains (1) summary
      pfam00755
      Location:2 → 504
      Carn_acyltransf; Choline/Carnitine o-acyltransferase

    6. XM_039112124.2 → XP_038968052.1  palmitoyl thioesterase CPT1C isoform X6

      UniProtKB/TrEMBL
      Q3KR63
      Conserved Domains (1) summary
      pfam00755
      Location:2 → 370
      Carn_acyltransf; Choline/Carnitine o-acyltransferase

    RNA

    1. XR_005505497.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1LN46.1 GenPept UniProtKB/Swiss-Prot:F1LN46

    Gene LinkOut

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