Human Gene ODC1 (ENST00000234111.9_8) from GENCODE V47lift37
  Description: ornithine decarboxylase 1, transcript variant 1 (from RefSeq NM_002539.3)
Gencode Transcript: ENST00000234111.9_8
Gencode Gene: ENSG00000115758.14_15
Transcript (Including UTRs)
   Position: hg19 chr2:10,580,094-10,588,453 Size: 8,360 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr2:10,580,850-10,585,158 Size: 4,309 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:10,580,094-10,588,453)mRNA (may differ from genome)Protein (461 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DCOR_HUMAN
DESCRIPTION: RecName: Full=Ornithine decarboxylase; Short=ODC; EC=4.1.1.17;
CATALYTIC ACTIVITY: L-ornithine = putrescine + CO(2).
COFACTOR: Pyridoxal phosphate.
ENZYME REGULATION: Inhibited by S-nitrosylation.
PATHWAY: Amine and polyamine biosynthesis; putrescine biosynthesis via L-ornithine pathway; putrescine from L-ornithine: step 1/1.
SUBUNIT: Homodimer.
INTERACTION: O95190:OAZ2; NbExp=1; IntAct=EBI-1044287, EBI-1051861;
INDUCTION: Down-regulated in response to enterovirus 71 (EV71) infection (at protein level).
PTM: S-Nitrosylation inhibits the enzyme. S-Nitrosylated in vitro on 4 cysteine residues.
SIMILARITY: Belongs to the Orn/Lys/Arg decarboxylase class-II family.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/odc1/";
WEB RESOURCE: Name=Wikipedia; Note=Ornithine decarboxylase entry; URL="http://en.wikipedia.org/wiki/Ornithine_decarboxylase";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ODC1
Diseases sorted by gene-association score: colorectal cancer* (125), transient cerebral ischemia (26), sleeping sickness (22), esophagus carcinoma in situ (16), colon adenocarcinoma (15), kidney hypertrophy (11), atrophic gastritis (11), mesenteric vascular occlusion (11), breast adenoma (11), cerebral artery occlusion (10), skin benign neoplasm (9), skin papilloma (9), autosomal dominant nonsyndromic deafness 69 (8), trypanosomiasis (7), colorectal adenoma (7), cervical intraepithelial neoplasia (6), intestinal benign neoplasm (4), familial adenomatous polyposis (4), wallerian degeneration (3), chagas disease (3), colonic benign neoplasm (3), breast cancer (3), papilloma (2), malaria (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 120.33 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1269.64 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -152.50334-0.457 Picture PostScript Text
3' UTR -237.10756-0.314 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR009006 - Ala_racemase/Decarboxylase_C
IPR022643 - De-COase2_C
IPR022657 - De-COase2_CS
IPR022644 - De-COase2_N
IPR022653 - De-COase2_pyr-phos_BS
IPR000183 - Orn/DAP/Arg_de-COase
IPR002433 - Orn_de-COase

Pfam Domains:
PF00278 - Pyridoxal-dependent decarboxylase, C-terminal sheet domain
PF02784 - Pyridoxal-dependent decarboxylase, pyridoxal binding domain

SCOP Domains:
50621 - Alanine racemase C-terminal domain-like
51658 - Xylose isomerase-like
51366 - Ribulose-phoshate binding barrel
51412 - Inosine monophosphate dehydrogenase (IMPDH)
51419 - PLP-binding barrel

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1D7K - X-ray MuPIT 2ON3 - X-ray MuPIT 2OO0 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P11926
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003824 catalytic activity
GO:0004586 ornithine decarboxylase activity
GO:0005515 protein binding
GO:0016829 lyase activity
GO:0016831 carboxy-lyase activity
GO:0042803 protein homodimerization activity

Biological Process:
GO:0001822 kidney development
GO:0006521 regulation of cellular amino acid metabolic process
GO:0006595 polyamine metabolic process
GO:0006596 polyamine biosynthetic process
GO:0008284 positive regulation of cell proliferation
GO:0009446 putrescine biosynthetic process
GO:0009615 response to virus
GO:0033387 putrescine biosynthetic process from ornithine
GO:0042176 regulation of protein catabolic process

Cellular Component:
GO:0005575 cellular_component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC028476 - Homo sapiens cDNA clone IMAGE:4040409, **** WARNING: chimeric clone ****.
E05957 - cDNA encoding ornithine decarboxylase.
M16650 - Homo sapiens ornithine decarboxylase (ODC1) mRNA, complete cds.
M20372 - Human ornithine decarboxylase (ODC) mRNA, 3' end.
X55362 - Human odc1 mRNA for ornithine decarboxylase.
BC014562 - Homo sapiens cDNA clone IMAGE:3505599, containing frame-shift errors.
BC025296 - Homo sapiens ornithine decarboxylase 1, mRNA (cDNA clone MGC:39254 IMAGE:5088190), complete cds.
AK301956 - Homo sapiens cDNA FLJ51371 complete cds, highly similar to Ornithine decarboxylase (EC 4.1.1.17).
AK292352 - Homo sapiens cDNA FLJ78294 complete cds, highly similar to Homo sapiens ornithine decarboxylase 1 (ODC1), mRNA.
AK312766 - Homo sapiens cDNA, FLJ93177, Homo sapiens ornithine decarboxylase 1 (ODC1), mRNA.
EU176390 - Synthetic construct Homo sapiens clone IMAGE:100006489; FLH190048.01X; RZPDo839B02252D ornithine decarboxylase 1 (ODC1) gene, encodes complete protein.
EU831615 - Synthetic construct Homo sapiens clone HAIB:100066644; DKFZo007C1219 ornithine decarboxylase 1 protein (ODC1) gene, encodes complete protein.
DQ896069 - Synthetic construct Homo sapiens clone IMAGE:100010529; FLH190041.01L; RZPDo839D1165D ornithine decarboxylase 1 (ODC1) gene, encodes complete protein.
EU831702 - Synthetic construct Homo sapiens clone HAIB:100066731; DKFZo003C1220 ornithine decarboxylase 1 protein (ODC1) gene, encodes complete protein.
DQ185043 - Homo sapiens ornithine decarboxylase 1 mRNA, partial cds.
CU692964 - Synthetic construct Homo sapiens gateway clone IMAGE:100022009 5' read ODC1 mRNA.
X53271 - H.sapiens mRNA for ornithine decarboxylase.
D28365 - Homo sapiens mRNA for ornithine decarboxylase, 5'UTR region.
AB362578 - Homo sapiens ODC1 mRNA for ornithine decarboxylase 1, 5' UTR, partial sequence, splicing variant 1.
JD184133 - Sequence 165157 from Patent EP1572962.
JD525715 - Sequence 506739 from Patent EP1572962.
JD156913 - Sequence 137937 from Patent EP1572962.
JD151238 - Sequence 132262 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-46 - putrescine biosynthesis III

Reactome (by CSHL, EBI, and GO)

Protein P11926 (Reactome details) participates in the following event(s):

R-HSA-350567 Antizyme OAZ binds to Ornithine decarboxylase
R-HSA-350578 NQO1 interaction with ODC
R-HSA-350600 Antizyme inhibitor binds to OAZ and stablizes ODC complex
R-HSA-70692 ornithine => putrescine + CO2
R-HSA-350562 Regulation of ornithine decarboxylase (ODC)
R-HSA-351202 Metabolism of polyamines
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: DCOR_HUMAN, ENST00000234111.1, ENST00000234111.2, ENST00000234111.3, ENST00000234111.4, ENST00000234111.5, ENST00000234111.6, ENST00000234111.7, ENST00000234111.8, NM_002539, P11926, Q53TU3, Q6LDS9, uc317dyn.1, uc317dyn.2
UCSC ID: ENST00000234111.9_8
RefSeq Accession: NM_002539.3
Protein: P11926 (aka DCOR_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene ODC1:
bachmann-bupp (Bachmann-Bupp Syndrome)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.