Gene Details | GeDiPNet - Complete Gene Info, Disease Associations & Pathways

Gene Gene information from NCBI Gene database. Gene miRNA Transcription factors Gene ontology Other IDs Protein Pathways Associated diseases
Entrez ID	4953
Gene name	Ornithine decarboxylase 1
Gene symbol	ODC1
Synonyms (NCBI Gene)	BABSNEDBANEDBIAODC
Chromosome	2
Chromosome location	2p25.1
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 o

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miRTarBase ID	miRNA	Experiments	Reference
MIRT004127	hsa-miR-192-5p	Microarray	16822819
MIRT051317	hsa-miR-15a-5p	CLASH	23622248
MIRT048600	hsa-miR-100-5p	CLASH	23622248
MIRT042942	hsa-miR-324-3p	CLASH	23622248
MIRT041549	hsa-miR-193b-3p	CLASH	23622248
MIRT440066	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT440066	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT756450	hsa-miR-378a-3p	Luciferase reporter assayWestern blottingqRT-PCR	36457036
MIRT1202089	hsa-miR-105	CLIP-seq
MIRT1202090	hsa-miR-1273	CLIP-seq
MIRT1202091	hsa-miR-1283	CLIP-seq
MIRT1202092	hsa-miR-1323	CLIP-seq
MIRT1202093	hsa-miR-135a	CLIP-seq
MIRT1202094	hsa-miR-135b	CLIP-seq
MIRT1202095	hsa-miR-187	CLIP-seq
MIRT1202096	hsa-miR-188-5p	CLIP-seq
MIRT1202097	hsa-miR-214	CLIP-seq
MIRT1202098	hsa-miR-2681	CLIP-seq
MIRT1202099	hsa-miR-3163	CLIP-seq
MIRT1202100	hsa-miR-3184	CLIP-seq
MIRT1202101	hsa-miR-3617	CLIP-seq
MIRT1202102	hsa-miR-3619-5p	CLIP-seq
MIRT1202103	hsa-miR-3671	CLIP-seq
MIRT1202104	hsa-miR-423-5p	CLIP-seq
MIRT1202105	hsa-miR-4272	CLIP-seq
MIRT1202106	hsa-miR-4274	CLIP-seq
MIRT1202107	hsa-miR-4281	CLIP-seq
MIRT1202108	hsa-miR-4291	CLIP-seq
MIRT1202109	hsa-miR-4519	CLIP-seq
MIRT1202110	hsa-miR-4666-5p	CLIP-seq
MIRT1202111	hsa-miR-4668-3p	CLIP-seq
MIRT1202112	hsa-miR-4688	CLIP-seq
MIRT1202113	hsa-miR-4709-3p	CLIP-seq
MIRT1202114	hsa-miR-4711-5p	CLIP-seq
MIRT1202115	hsa-miR-4802-3p	CLIP-seq
MIRT1202116	hsa-miR-520d-5p	CLIP-seq
MIRT1202117	hsa-miR-524-5p	CLIP-seq
MIRT1202118	hsa-miR-526b	CLIP-seq
MIRT1202119	hsa-miR-548ac	CLIP-seq
MIRT1202120	hsa-miR-548ae	CLIP-seq
MIRT1202121	hsa-miR-548aj	CLIP-seq
MIRT1202122	hsa-miR-548am	CLIP-seq
MIRT1202123	hsa-miR-548c-3p	CLIP-seq
MIRT1202124	hsa-miR-548d-3p	CLIP-seq
MIRT1202125	hsa-miR-548o	CLIP-seq
MIRT1202126	hsa-miR-548x	CLIP-seq
MIRT1202127	hsa-miR-548z	CLIP-seq
MIRT1202128	hsa-miR-587	CLIP-seq
MIRT1202129	hsa-miR-600	CLIP-seq
MIRT1202130	hsa-miR-604	CLIP-seq
MIRT1202131	hsa-miR-605	CLIP-seq
MIRT1202132	hsa-miR-607	CLIP-seq
MIRT1202133	hsa-miR-641	CLIP-seq
MIRT1202134	hsa-miR-646	CLIP-seq
MIRT1202135	hsa-miR-647	CLIP-seq
MIRT1202136	hsa-miR-761	CLIP-seq
MIRT1202137	hsa-miR-922	CLIP-seq
MIRT1202089	hsa-miR-105	CLIP-seq
MIRT1202095	hsa-miR-187	CLIP-seq
MIRT1202097	hsa-miR-214	CLIP-seq
MIRT1202100	hsa-miR-3184	CLIP-seq
MIRT1202102	hsa-miR-3619-5p	CLIP-seq
MIRT1202104	hsa-miR-423-5p	CLIP-seq
MIRT1202107	hsa-miR-4281	CLIP-seq
MIRT1202108	hsa-miR-4291	CLIP-seq
MIRT1202110	hsa-miR-4666-5p	CLIP-seq
MIRT1202112	hsa-miR-4688	CLIP-seq
MIRT1202113	hsa-miR-4709-3p	CLIP-seq
MIRT1202115	hsa-miR-4802-3p	CLIP-seq
MIRT1202118	hsa-miR-526b	CLIP-seq
MIRT1202128	hsa-miR-587	CLIP-seq
MIRT1202134	hsa-miR-646	CLIP-seq
MIRT1202136	hsa-miR-761	CLIP-seq
MIRT1202137	hsa-miR-922	CLIP-seq
MIRT1202089	hsa-miR-105	CLIP-seq
MIRT1202091	hsa-miR-1283	CLIP-seq
MIRT2286687	hsa-miR-3136-3p	CLIP-seq
MIRT2286688	hsa-miR-3140-3p	CLIP-seq
MIRT2286689	hsa-miR-328	CLIP-seq
MIRT2286690	hsa-miR-3914	CLIP-seq
MIRT1202110	hsa-miR-4666-5p	CLIP-seq
MIRT1202115	hsa-miR-4802-3p	CLIP-seq
MIRT1202119	hsa-miR-548ac	CLIP-seq
MIRT1202120	hsa-miR-548ae	CLIP-seq
MIRT1202121	hsa-miR-548aj	CLIP-seq
MIRT1202122	hsa-miR-548am	CLIP-seq
MIRT1202124	hsa-miR-548d-3p	CLIP-seq
MIRT1202126	hsa-miR-548x	CLIP-seq
MIRT1202127	hsa-miR-548z	CLIP-seq
MIRT1202128	hsa-miR-587	CLIP-seq

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Transcription factor	Regulation	Reference
APC	Repression	12112318
CREB1	Unknown	1356108
KLF4	Repression	12297499
MAX	Activation	8262968
MLX	Unknown	19960435
MXD1	Unknown	19789310
MXD4	Unknown	19789310
MYC	Activation	21874531;8262968
MYC	Unknown	19789310
SP1	Unknown	10448078;8132514
WT1	Activation	8604351
ZNF148	Unknown	10448078

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GO ID	Ontology	Definition	Evidence	Reference
GO:0001822	Process	Kidney development	IEA
GO:0003824	Function	Catalytic activity	IEA
GO:0004586	Function	Ornithine decarboxylase activity	IBA
GO:0004586	Function	Ornithine decarboxylase activity	IDA
GO:0004586	Function	Ornithine decarboxylase activity	IEA
GO:0004586	Function	Ornithine decarboxylase activity	ISS
GO:0004586	Function	Ornithine decarboxylase activity	TAS	2317811
GO:0005515	Function	Protein binding	IPI	25416956, 28514442, 29892012, 31515488, 32296183, 33961781
GO:0005737	Component	Cytoplasm	IBA
GO:0005737	Component	Cytoplasm	IEA
GO:0005737	Component	Cytoplasm	ISS
GO:0005829	Component	Cytosol	IEA
GO:0005829	Component	Cytosol	TAS
GO:0006595	Process	Polyamine metabolic process	IEA
GO:0006595	Process	Polyamine metabolic process	TAS
GO:0006596	Process	Polyamine biosynthetic process	IEA
GO:0008283	Process	Cell population proliferation	IEA
GO:0008284	Process	Positive regulation of cell population proliferation	IEA
GO:0009615	Process	Response to virus	IEP	16548883
GO:0016829	Function	Lyase activity	IEA
GO:0016831	Function	Carboxy-lyase activity	IEA
GO:0033387	Process	Putrescine biosynthetic process from arginine, via ornithine	IBA
GO:0033387	Process	Putrescine biosynthetic process from arginine, via ornithine	IEA
GO:0033387	Process	Putrescine biosynthetic process from arginine, via ornithine	ISS
GO:0042176	Process	Regulation of protein catabolic process	IEA
GO:0042176	Process	Regulation of protein catabolic process	ISS
GO:0042803	Function	Protein homodimerization activity	IEA
GO:0042803	Function	Protein homodimerization activity	ISS

MIM	HGNC	e!Ensembl
165640	8109	ENSG00000115758

P11926

Protein name

Ornithine decarboxylase (ODC) (EC 4.1.1.17)

Protein function

Catalyzes the first and rate-limiting step of polyamine biosynthesis that converts ornithine into putrescine, which is the precursor for the polyamines, spermidine and spermine. Polyamines are essential for cell proliferation and are implicated

PDB

1D7K , 2ON3 , 2OO0 , 4ZGY , 5BWA , 7S3F , 7S3G , 7U6P , 7U6U , 9B8M , 9B8N

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF00278	Orn_DAP_Arg_deC	40 → 387	Pyridoxal-dependent decarboxylase, C-terminal sheet domain	Domain
PF02784	Orn_Arg_deC_N	45 → 281	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	Domain

Sequence

MNNFGNEEFDCHFLDEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKKHLRWLKALP
RVTPFYAVKCNDSKAIVKTLAATGTGFDCASKTEIQLVQSLGVPPERIIYANPCKQVSQI
KYAANNGVQMMTFDSEVELMKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLRTSRLL
LERAKELNIDVVGVSFHVGSGCTDPETFVQAISDARCVFDMGAEVGFSMYLLDIGGGFPG
SEDVKLKFEEITGVINPALDKYFPSDSGVRIIAEPGRYYVASAFTLAVNIIAKKIVLKEQ
TGSDDEDESSEQTFMYYVNDGVYGSFNCILYDHAHVKPLLQKRPKPDEKYYSSSIWGPTC
DGLDRIVERCDLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPTIYYVMSGPAWQLMQQF
QNPDFPPEVEEQDASTLPVSCAWESGMKRHRAACASASINV

Sequence length

461

Interactions

View interactions

	KEGG		Reactome
	Arginine and proline metabolism Glutathione metabolism Metabolic pathways Efferocytosis		Regulation of ornithine decarboxylase (ODC) Metabolism of polyamines

Evidence Score: ★☆☆☆☆ Gene-disease association found in Text Mining only ★★☆☆☆ Found in Text Mining and Unknown/Other Associations ★★★☆☆ Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆ ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★ ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)

Show/Hide Causal Diseases (1)

Phenotype Name	Clinical Significance	dbSNP ID	RCV Accession	Evidence Score
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Neurodevelopmental disorder with alopecia and brain abnormalities	Likely pathogenic; Pathogenic	rs1671795191, rs1671814748, rs1671814787, rs1671798353, rs1671794742	RCV001847213 RCV001263228 RCV001263229 RCV001263230 RCV001263232	★★★★★ ★★★★★ ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)

Show/Hide Unknown Diseases (11)

Phenotype Name	Clinical Significance	Source	Evidence Score
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
COLONIC NEOPLASMS	—	CTD	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
COLORECTAL NEOPLASMS	—	CTD	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Familial cancer of breast	Likely benign	ClinVar	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
GLOBAL DEVELOPMENTAL DELAY, ALOPECIA, MACROCEPHALY, FACIAL DYSMORPHISM, STRUCTURAL BRAIN ANOMALIES SYNDROME	—	Disgenet	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
GLOBAL DEVELOPMENTAL DELAY-ALOPECIA-MACROCEPHALY-FACIAL DYSMORPHISM-STRUCTURAL BRAIN ANOMALIES SYNDROME	—	Orphanet	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Intellectual disability	Benign; Likely benign	ClinVar	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
ODC1-related disorder	Benign; Likely benign; Uncertain significance	ClinVar	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Ornithine decarboxylase 1 polymorphism	Benign	ClinVar	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Ovarian serous cystadenocarcinoma	Likely benign	ClinVar	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
PAPILLOMA	—	CTD	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SKIN NEOPLASMS	—	CTD	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations

ODC1 (ornithine decarboxylase 1)