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    Pipox pipecolic acid and sarcosine oxidase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303272, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pipoxprovided by RGD
    Official Full Name
    pipecolic acid and sarcosine oxidaseprovided by RGD
    Primary source
    RGD:1311347
    See related
    EnsemblRapid:ENSRNOG00000008798 AllianceGenome:RGD:1311347
    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
    Summary
    Predicted to enable L-pipecolate oxidase activity and sarcosine oxidase activity. Predicted to be involved in L-lysine catabolic process to acetyl-CoA via L-pipecolate. Predicted to be active in peroxisome. Orthologous to human PIPOX (pipecolic acid and sarcosine oxidase). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 377.1), Adrenal (RPKM 76.1) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pipox in Genome Data Viewer
    Location:
    10q24
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (63267946..63281556, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (62769874..62783484, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (64951986..64964865)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene bolA family member 2, pseudogene 5 Neighboring gene myosin XVIIIa Neighboring gene uncharacterized LOC102557169 Neighboring gene uncharacterized LOC102551552 Neighboring gene uncharacterized LOC134480828 Neighboring gene seizure related 6 homolog Neighboring gene PHD finger protein 12

    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. L-Pipecolic acid oxidase, a human enzyme essential for the degradation of L-pipecolic acid, is most similar to the monomeric sarcosine oxidases. Dodt G, et al. Biochem J, 2000 Feb 1. PMID 10642506, Free PMC Article
    2. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. Kikuchi M, et al. J Biol Chem, 2004 Jan 2. PMID 14561759
    3. A proteome-wide perspective on peroxisome targeting signal 1(PTS1)-Pex5p affinities. Ghosh D, et al. J Am Chem Soc, 2010 Mar 24. PMID 20178365
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables L-pipecolate oxidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables L-pipecolate oxidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables flavin adenine dinucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sarcosine oxidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables sarcosine oxidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in L-lysine catabolic process to acetyl-CoA via L-pipecolate IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in L-lysine catabolic process to acetyl-CoA via L-pipecolate ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in peroxisome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in peroxisome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    peroxisomal sarcosine oxidase
    Names
    pipecolic acid oxidase
    NP_001012009.1
    XP_006247020.1
    XP_006247021.1
    XP_038941919.1
    XP_038941920.1
    XP_038941922.1
    XP_063125109.1
    XP_063125110.1

    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_001012009.1 → NP_001012009.1  peroxisomal sarcosine oxidase

      See identical proteins and their annotated locations for NP_001012009.1

      Status: PROVISIONAL

      Source sequence(s)
      BC088249
      UniProtKB/TrEMBL
      A6HGZ4, Q5I0K1
      Related
      ENSRNOP00000012154.5, ENSRNOT00000012154.9
      Conserved Domains (2) summary
      TIGR01377
      Location:8 → 388
      soxA_mon; sarcosine oxidase, monomeric form
      cl21454
      Location:8 → 68
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

    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_086028.1 Reference GRCr8

      Range
      63267946..63281556 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006246958.3 → XP_006247020.1  peroxisomal sarcosine oxidase isoform X1

      See identical proteins and their annotated locations for XP_006247020.1

      UniProtKB/TrEMBL
      A6HGZ4, Q5I0K1
      Conserved Domains (2) summary
      TIGR01377
      Location:8 → 388
      soxA_mon; sarcosine oxidase, monomeric form
      cl21454
      Location:8 → 68
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

    2. XM_006246959.4 → XP_006247021.1  peroxisomal sarcosine oxidase isoform X2

      UniProtKB/TrEMBL
      A6HGZ4
      Conserved Domains (2) summary
      TIGR01377
      Location:8 → 335
      soxA_mon; sarcosine oxidase, monomeric form
      cl21454
      Location:8 → 68
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

    3. XM_039085994.2 → XP_038941922.1  peroxisomal sarcosine oxidase isoform X4

      Conserved Domains (1) summary
      TIGR01377
      Location:2 → 221
      soxA_mon; sarcosine oxidase, monomeric form

    4. XM_039085992.2 → XP_038941920.1  peroxisomal sarcosine oxidase isoform X3

      Conserved Domains (1) summary
      TIGR01377
      Location:1 → 292
      soxA_mon; sarcosine oxidase, monomeric form

    5. XM_039085991.2 → XP_038941919.1  peroxisomal sarcosine oxidase isoform X3

      Conserved Domains (1) summary
      TIGR01377
      Location:1 → 292
      soxA_mon; sarcosine oxidase, monomeric form

    6. XM_063269039.1 → XP_063125109.1  peroxisomal sarcosine oxidase isoform X3

    7. XM_063269040.1 → XP_063125110.1  peroxisomal sarcosine oxidase isoform X4

    Nucleotide Protein Strain
    Heading Accession and Version

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