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    ODC1 ornithine decarboxylase 1 [ Homo sapiens (human) ]

    Gene ID: 4953, updated on 2-Nov-2024

    Summary

    Official Symbol
    ODC1provided by HGNC
    Official Full Name
    ornithine decarboxylase 1provided by HGNC
    Primary source
    HGNC:HGNC:8109
    See related
    Ensembl:ENSG00000115758 MIM:165640; AllianceGenome:HGNC:8109
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ODC; BABS; NEDBA; NEDBIA
    Summary
    This gene encodes the rate-limiting enzyme of the polyamine biosynthesis pathway which catalyzes ornithine to putrescine. The activity level for the enzyme varies in response to growth-promoting stimuli and exhibits a high turnover rate in comparison to other mammalian proteins. Originally localized to both chromosomes 2 and 7, the gene encoding this enzyme has been determined to be located on 2p25, with a pseudogene located on 7q31-qter. Multiple alternatively spliced transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, Dec 2013]
    Expression
    Broad expression in testis (RPKM 67.6), bone marrow (RPKM 54.4) and 24 other tissues See more
    Orthologs
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    Genomic context

    See ODC1 in Genome Data Viewer
    Location:
    2p25.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (10439968..10448327, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (10469577..10477937, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (10580094..10588453, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene hippocalcin like 1 Neighboring gene uncharacterized LOC124905972 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:10547784-10548983 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10559385-10559972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10559973-10560560 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10564889-10565701 Neighboring gene uncharacterized LOC124907732 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10572745-10573710 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10573711-10574675 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15303 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:10586390-10586619 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15304 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11165 Neighboring gene small nucleolar RNA, H/ACA box 80B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10600271-10600772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10600773-10601272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10606558-10607058 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10607059-10607559 Neighboring gene ODC1 divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10609230-10609744 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10609745-10610259 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10616917-10617620 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10617621-10618324 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:10618316-10618506 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10627262-10627772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10627773-10628281 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15305 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15306 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15307 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15308 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10637679-10638211 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10662988-10663488 Neighboring gene uncharacterized LOC105373426 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10679827-10680338 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:10686337-10687208

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    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 GOA

    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
     
    enables ornithine decarboxylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables ornithine decarboxylase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein homodimerization activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in kidney development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in polyamine metabolic process TAS
    Traceable Author Statement
    more info
     
    involved_in positive regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in putrescine biosynthetic process from ornithine IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in putrescine biosynthetic process from ornithine IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in putrescine biosynthetic process from ornithine ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in response to virus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    ornithine decarboxylase
    NP_001274117.1
    NP_001274118.1
    NP_001274119.1
    NP_002530.1

    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.

    Genomic

    1. NG_012105.1 RefSeqGene

      Range
      5001..13360
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001287188.2NP_001274117.1  ornithine decarboxylase isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has an alternate splice site, which results in translation initiation at a downstream AUG start codon, compared to variant 1. The resulting isoform (2) has a shorter N-termius, compared to isoform 1.
      Source sequence(s)
      AC007249, AI277727, AK301956, BC014562
      UniProtKB/TrEMBL
      B4DXF8
      Conserved Domains (1) summary
      cd00622
      Location:1279
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
    2. NM_001287189.2NP_001274118.1  ornithine decarboxylase isoform 1

      See identical proteins and their annotated locations for NP_001274118.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has an alternate 5' UTR exon, compared to variant 1. Variants 1, 3 and 4 encode the same isoform (1).
      Source sequence(s)
      AC007249, AI277727, AK292352, BC014562, HY044065
      Consensus CDS
      CCDS1672.1
      UniProtKB/Swiss-Prot
      P11926, Q53TU3, Q6LDS9
      Related
      ENSP00000385333.1, ENST00000405333.5
      Conserved Domains (1) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
    3. NM_001287190.2NP_001274119.1  ornithine decarboxylase isoform 1

      See identical proteins and their annotated locations for NP_001274119.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) has an alternate 5' UTR exon, compared to variant 1. Variants 1, 3 and 4 encode the same isoform (1).
      Source sequence(s)
      AC007249, AI277727, BC014562, BI463057, HY044065
      Consensus CDS
      CCDS1672.1
      UniProtKB/Swiss-Prot
      P11926, Q53TU3, Q6LDS9
      Related
      ENSP00000390691.2, ENST00000443218.2
      Conserved Domains (1) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
    4. NM_002539.3NP_002530.1  ornithine decarboxylase isoform 1

      See identical proteins and their annotated locations for NP_002530.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1, 3, and 4 encode the same isoform (1).
      Source sequence(s)
      AC007249, AI277727, BC014562, BC025296
      Consensus CDS
      CCDS1672.1
      UniProtKB/Swiss-Prot
      P11926, Q53TU3, Q6LDS9
      Related
      ENSP00000234111.4, ENST00000234111.9
      Conserved Domains (1) summary
      cd00622
      Location:37408
      PLPDE_III_ODC; Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      10439968..10448327 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      10469577..10477937 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)