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ODC1 ornithine decarboxylase 1 [ Homo sapiens (human) ]

Gene ID: 4953, updated on 7-Dec-2018

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
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
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

Genomic context

See ODC1 in Genome Data Viewer
Location:
2p25.1
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 2 NC_000002.12 (10440371..10448554, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (10580507..10588680, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101929691 Neighboring gene hippocalcin like 1 Neighboring gene small nucleolar RNA, H/ACA box 80B Neighboring gene ODC1 divergent transcript Neighboring gene uncharacterized LOC105373426

Genomic regions, transcripts, and products

Expression

  • Project title: 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 FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

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

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
    4774..12957
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001287188.1NP_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_001287189.1NP_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)
    AI277727, AK292352, BC014562, HY044065
    Consensus CDS
    CCDS1672.1
    UniProtKB/Swiss-Prot
    P11926
    Related
    ENSP00000385333.1, ENST00000405333.5
    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. NM_001287190.1NP_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)
    AI277727, BC014562, BI463057, HY044065
    Consensus CDS
    CCDS1672.1
    UniProtKB/Swiss-Prot
    P11926
    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]
  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
    Related
    ENSP00000234111.4, ENST00000234111.8
    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: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p12 Primary Assembly

    Range
    10440371..10448554 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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