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    Odc1 ornithine decarboxylase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24609, updated on 9-Dec-2024

    Summary

    Official Symbol
    Odc1provided by RGD
    Official Full Name
    ornithine decarboxylase 1provided by RGD
    Primary source
    RGD:3227
    See related
    EnsemblRapid:ENSRNOG00000005424 AllianceGenome:RGD:3227
    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
    Odc
    Summary
    Enables ornithine decarboxylase activity. Involved in putrescine biosynthetic process. Located in perinuclear region of cytoplasm. Orthologous to human ODC1 (ornithine decarboxylase 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 810.1), Thymus (RPKM 444.5) and 9 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Odc1 in Genome Data Viewer
    Location:
    6q16
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (46058439..46065148)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (40329831..40336444)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (42852529..42859142)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene craniofacial development protein 1 like 1 Neighboring gene proteasome activator subunit 3, pseudogene 2 Neighboring gene small nucleolar RNA, H/ACA box 80B Neighboring gene uncharacterized LOC134479118 Neighboring gene uncharacterized LOC134479347

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ornithine decarboxylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ornithine decarboxylase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ornithine decarboxylase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein homodimerization activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    ornithine decarboxylase
    Names
    Ornitine decarboxylase
    NP_001289012.1
    NP_036747.1
    XP_006239969.1
    XP_006239970.1
    XP_017449519.1
    XP_063117614.1

    NCBI Reference Sequences (RefSeq)

    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_001302083.1NP_001289012.1  ornithine decarboxylase

      See identical proteins and their annotated locations for NP_001289012.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has two alternate splice sites in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      DV728774, FQ151473, J04791, M16982
      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
      Conserved Domains (2) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
      COG0019
      Location:40408
      LysA; Diaminopimelate decarboxylase [Amino acid transport and metabolism]
    2. NM_012615.3NP_036747.1  ornithine decarboxylase

      See identical proteins and their annotated locations for NP_036747.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      BC078882, DV728774, FQ151473, M16982
      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
      Conserved Domains (2) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
      COG0019
      Location:40408
      LysA; Diaminopimelate decarboxylase [Amino acid transport and metabolism]

    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_086024.1 Reference GRCr8

      Range
      46058439..46065148
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017594030.2XP_017449519.1  ornithine decarboxylase isoform X1

      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
      Related
      ENSRNOP00000007259.2, ENSRNOT00000007259.6
      Conserved Domains (2) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
      COG0019
      Location:40408
      LysA; Diaminopimelate decarboxylase [Amino acid transport and metabolism]
    2. XM_006239907.5XP_006239969.1  ornithine decarboxylase isoform X1

      See identical proteins and their annotated locations for XP_006239969.1

      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
      Conserved Domains (2) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
      COG0019
      Location:40408
      LysA; Diaminopimelate decarboxylase [Amino acid transport and metabolism]
    3. XM_063261544.1XP_063117614.1  ornithine decarboxylase isoform X1

      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
    4. XM_006239908.5XP_006239970.1  ornithine decarboxylase isoform X1

      See identical proteins and their annotated locations for XP_006239970.1

      UniProtKB/Swiss-Prot
      P09057
      UniProtKB/TrEMBL
      A6HAU9
      Conserved Domains (2) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
      COG0019
      Location:40408
      LysA; Diaminopimelate decarboxylase [Amino acid transport and metabolism]