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

Gene Gene information from NCBI Gene database. Gene miRNA Gene ontology Other IDs Protein Associated diseases
Entrez ID	81544
Gene name	Glycerophosphodiester phosphodiesterase domain containing 5
Gene symbol	GDPD5
Synonyms (NCBI Gene)	GDE2PP1665
Chromosome	11
Chromosome location	11q13.4-q13.5
Summary	Glycerophosphodiester phosphodiesterases (GDPDs; EC 3.1.4.46), such as GDPD5, are involved in glycerol metabolism (Lang et al., 2008 [PubMed 17578682]).[supplied by OMIM, Jan 2010]

113

Show/Hide all (113)

miRTarBase ID	miRNA	Experiments	Reference
MIRT051947	hsa-let-7b-5p	CLASH	23622248
MIRT049585	hsa-miR-92a-3p	CLASH	23622248
MIRT703343	hsa-miR-874-3p	HITS-CLIP	23313552
MIRT703342	hsa-miR-873-5p	HITS-CLIP	23313552
MIRT703341	hsa-miR-383-5p	HITS-CLIP	23313552
MIRT703340	hsa-miR-3943	HITS-CLIP	23313552
MIRT703339	hsa-miR-6760-5p	HITS-CLIP	23313552
MIRT703338	hsa-miR-3617-3p	HITS-CLIP	23313552
MIRT703337	hsa-miR-652-3p	HITS-CLIP	23313552
MIRT703336	hsa-miR-922	HITS-CLIP	23313552
MIRT703335	hsa-miR-214-3p	HITS-CLIP	23313552
MIRT703334	hsa-miR-3619-5p	HITS-CLIP	23313552
MIRT703333	hsa-miR-761	HITS-CLIP	23313552
MIRT703332	hsa-miR-4270	HITS-CLIP	23313552
MIRT703331	hsa-miR-4441	HITS-CLIP	23313552
MIRT703330	hsa-miR-6754-5p	HITS-CLIP	23313552
MIRT703329	hsa-miR-1205	HITS-CLIP	23313552
MIRT703328	hsa-miR-6889-3p	HITS-CLIP	23313552
MIRT703327	hsa-miR-1286	HITS-CLIP	23313552
MIRT703326	hsa-miR-4722-5p	HITS-CLIP	23313552
MIRT703325	hsa-miR-6132	HITS-CLIP	23313552
MIRT703324	hsa-miR-6836-5p	HITS-CLIP	23313552
MIRT703323	hsa-miR-1909-3p	HITS-CLIP	23313552
MIRT703322	hsa-miR-6722-3p	HITS-CLIP	23313552
MIRT703321	hsa-miR-7976	HITS-CLIP	23313552
MIRT703320	hsa-miR-3173-5p	HITS-CLIP	23313552
MIRT703319	hsa-miR-6799-3p	HITS-CLIP	23313552
MIRT703318	hsa-miR-146b-3p	HITS-CLIP	23313552
MIRT703317	hsa-miR-4683	HITS-CLIP	23313552
MIRT703316	hsa-miR-4291	HITS-CLIP	23313552
MIRT703315	hsa-miR-188-3p	HITS-CLIP	23313552
MIRT703343	hsa-miR-874-3p	HITS-CLIP	23313552
MIRT703342	hsa-miR-873-5p	HITS-CLIP	23313552
MIRT703341	hsa-miR-383-5p	HITS-CLIP	23313552
MIRT703340	hsa-miR-3943	HITS-CLIP	23313552
MIRT703339	hsa-miR-6760-5p	HITS-CLIP	23313552
MIRT703338	hsa-miR-3617-3p	HITS-CLIP	23313552
MIRT703337	hsa-miR-652-3p	HITS-CLIP	23313552
MIRT703336	hsa-miR-922	HITS-CLIP	23313552
MIRT703335	hsa-miR-214-3p	HITS-CLIP	23313552
MIRT703334	hsa-miR-3619-5p	HITS-CLIP	23313552
MIRT703333	hsa-miR-761	HITS-CLIP	23313552
MIRT703332	hsa-miR-4270	HITS-CLIP	23313552
MIRT703331	hsa-miR-4441	HITS-CLIP	23313552
MIRT703330	hsa-miR-6754-5p	HITS-CLIP	23313552
MIRT703329	hsa-miR-1205	HITS-CLIP	23313552
MIRT703328	hsa-miR-6889-3p	HITS-CLIP	23313552
MIRT703327	hsa-miR-1286	HITS-CLIP	23313552
MIRT703326	hsa-miR-4722-5p	HITS-CLIP	23313552
MIRT703325	hsa-miR-6132	HITS-CLIP	23313552
MIRT703324	hsa-miR-6836-5p	HITS-CLIP	23313552
MIRT703323	hsa-miR-1909-3p	HITS-CLIP	23313552
MIRT703322	hsa-miR-6722-3p	HITS-CLIP	23313552
MIRT703321	hsa-miR-7976	HITS-CLIP	23313552
MIRT703320	hsa-miR-3173-5p	HITS-CLIP	23313552
MIRT703319	hsa-miR-6799-3p	HITS-CLIP	23313552
MIRT703318	hsa-miR-146b-3p	HITS-CLIP	23313552
MIRT703317	hsa-miR-4683	HITS-CLIP	23313552
MIRT703316	hsa-miR-4291	HITS-CLIP	23313552
MIRT703315	hsa-miR-188-3p	HITS-CLIP	23313552
MIRT1016066	hsa-miR-1285	CLIP-seq
MIRT1016067	hsa-miR-1287	CLIP-seq
MIRT1016068	hsa-miR-218	CLIP-seq
MIRT1016069	hsa-miR-2278	CLIP-seq
MIRT1016070	hsa-miR-3135b	CLIP-seq
MIRT1016071	hsa-miR-3138	CLIP-seq
MIRT1016072	hsa-miR-3187-5p	CLIP-seq
MIRT1016073	hsa-miR-3622b-5p	CLIP-seq
MIRT1016074	hsa-miR-3660	CLIP-seq
MIRT1016075	hsa-miR-3672	CLIP-seq
MIRT1016076	hsa-miR-3945	CLIP-seq
MIRT1016077	hsa-miR-4253	CLIP-seq
MIRT1016078	hsa-miR-4468	CLIP-seq
MIRT1016079	hsa-miR-4499	CLIP-seq
MIRT1016080	hsa-miR-450b-3p	CLIP-seq
MIRT1016081	hsa-miR-4512	CLIP-seq
MIRT1016082	hsa-miR-4513	CLIP-seq
MIRT1016083	hsa-miR-4526	CLIP-seq
MIRT1016084	hsa-miR-4638-3p	CLIP-seq
MIRT1016085	hsa-miR-4700-3p	CLIP-seq
MIRT1016086	hsa-miR-4713-3p	CLIP-seq
MIRT1016087	hsa-miR-4716-3p	CLIP-seq
MIRT1016088	hsa-miR-4768-3p	CLIP-seq
MIRT1016089	hsa-miR-4800-5p	CLIP-seq
MIRT1016090	hsa-miR-544b	CLIP-seq
MIRT1016091	hsa-miR-612	CLIP-seq
MIRT1016092	hsa-miR-622	CLIP-seq
MIRT1016093	hsa-miR-636	CLIP-seq
MIRT1016094	hsa-miR-638	CLIP-seq
MIRT1016095	hsa-miR-769-3p	CLIP-seq
MIRT2000779	hsa-miR-1207-3p	CLIP-seq
MIRT2000780	hsa-miR-1289	CLIP-seq
MIRT2000781	hsa-miR-2467-5p	CLIP-seq
MIRT2000782	hsa-miR-2861	CLIP-seq
MIRT2000783	hsa-miR-3136-3p	CLIP-seq
MIRT2000784	hsa-miR-3664-3p	CLIP-seq
MIRT2000785	hsa-miR-3927	CLIP-seq
MIRT2000786	hsa-miR-4433	CLIP-seq
MIRT2000787	hsa-miR-4451	CLIP-seq
MIRT2000788	hsa-miR-4459	CLIP-seq
MIRT1016088	hsa-miR-4768-3p	CLIP-seq
MIRT2000789	hsa-miR-486-3p	CLIP-seq
MIRT2000783	hsa-miR-3136-3p	CLIP-seq
MIRT1016071	hsa-miR-3138	CLIP-seq
MIRT2234258	hsa-miR-335	CLIP-seq
MIRT2234259	hsa-miR-4701-5p	CLIP-seq
MIRT1016089	hsa-miR-4800-5p	CLIP-seq
MIRT2234260	hsa-miR-485-5p	CLIP-seq
MIRT1016090	hsa-miR-544b	CLIP-seq
MIRT2234261	hsa-miR-588	CLIP-seq
MIRT2234262	hsa-miR-604	CLIP-seq
MIRT1016092	hsa-miR-622	CLIP-seq
MIRT2388415	hsa-miR-1909	CLIP-seq

Show/Hide all (17)

GO ID	Ontology	Definition	Evidence	Reference
GO:0004435	Function	Phosphatidylinositol-4,5-bisphosphate phospholipase C activity	IEA
GO:0005515	Function	Protein binding	IPI	25416956, 26871637
GO:0005737	Component	Cytoplasm	IEA
GO:0005886	Component	Plasma membrane	IBA
GO:0006629	Process	Lipid metabolic process	IEA
GO:0007399	Process	Nervous system development	IEA
GO:0008081	Function	Phosphoric diester hydrolase activity	IEA
GO:0008889	Function	Glycerophosphodiester phosphodiesterase activity	IBA
GO:0012505	Component	Endomembrane system	IEA
GO:0016020	Component	Membrane	IEA
GO:0016787	Function	Hydrolase activity	IEA
GO:0030426	Component	Growth cone	IEA
GO:0042995	Component	Cell projection	IEA
GO:0045597	Process	Positive regulation of cell differentiation	IEA
GO:0045666	Process	Positive regulation of neuron differentiation	IBA
GO:0047389	Function	Glycerophosphocholine phosphodiesterase activity	IEA
GO:0048471	Component	Perinuclear region of cytoplasm	IEA

MIM	HGNC	e!Ensembl
609632	28804	ENSG00000158555

Q8WTR4

Protein name

Glycerophosphodiester phosphodiesterase domain-containing protein 5 (Glycerophosphocholine phosphodiesterase GDPD5) (EC 3.1.4.2) (Glycerophosphodiester phosphodiesterase 2) (Phosphoinositide phospholipase C GDPD5) (EC 3.1.4.11)

Protein function

Glycerophosphodiester phosphodiesterase that promotes neurite formation and drives spinal motor neuron differentiation (By similarity). Mediates the cleavage of glycosylphosphatidylinositol (GPI) anchor of target proteins: removes the GPI-anchor

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF03009	GDPD	233 → 370	Glycerophosphoryl diester phosphodiesterase family	Family

Sequence

MVRHQPLQYYEPQLCLSCLTGIYGCRWKRYQRSHDDTTPWERLWFLLLTFTFGLTLTWLY
FWWEVHNDYDEFNWYLYNRMGYWSDWPVPILVTTAAAFAYIAGLLVLALCHIAVGQQMNL
HWLHKIGLVVILASTVVAMSAVAQLWEDEWEVLLISLQGTAPFLHVGAVAAVTMLSWIVA
GQFARAERTSSQVTILCTFFTVVFALYLAPLTISSPCIMEKKDLGPKPALIGHRGAPMLA
PEHTLMSFRKALEQKLYGLQADITISLDGVPFLMHDTTLRRTTNVEEEFPELARRPASML
NWTTLQRLNAGQWFLKTDPFWTASSLSPSDHREAQNQSICSLAELLELAKGNATLLLNLR
DPPREHPYRSSFINVTLEAVLHSGFPQHQVMWLPSRQRPLVRKVAPGFQQTSGSKEAVAS
LRRGHIQRLNLRYTQVSRQELRDYASWNLSVNLYTVNAPWLFSLLWCAGVPSVTSDNSHA
LSQVPSPLWIMPPDEYCLMWVTADLVSFTLIVGIFVLQKWRLGGIRSYNPEQIMLSAAVR
RTSRDVSIMKEKLIFSEISDGVEVSDVLSVCSDNSYDTYANSTATPVGPRGGGSHTKTLI
ERSGR

Sequence length

605

Interactions

View interactions

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 Unknown Diseases (5)

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.
COLORECTAL CANCER	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CORNEAL DYSTROPHY	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CORONARY ARTERY DISEASE	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
ENDOMETRIAL NEOPLASM	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
EYE DISEASE	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Show/Hide Text Mining Associations (16)

Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Associations from Text Mining Disease associations identified through text mining
Alzheimer Disease	Alzheimer disease	Pubtator	33731436	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Amyotrophic Lateral Sclerosis, Familial	Amyotrophic lateral sclerosis	BEFREE	28103900		★★★★★ ★☆☆☆☆ Found in Text Mining only
Breast Carcinoma	Breast Carcinoma	BEFREE	22279038		★★★★★ ★☆☆☆☆ Found in Text Mining only
Breast Neoplasms	Breast neoplasm	Pubtator	22279038, 27356959	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Colorectal Carcinoma	Colorectal Cancer	BEFREE	29635904		★★★★★ ★☆☆☆☆ Found in Text Mining only
Hearing Loss	Hearing loss	Pubtator	33924653	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Leukemia, Myelocytic, Acute	Leukemia	GWASCAT_DG	27903959		★★★★★ ★☆☆☆☆ Found in Text Mining only
Malignant neoplasm of breast	Breast Cancer	BEFREE	22279038		★★★★★ ★☆☆☆☆ Found in Text Mining only
Malignant Neoplasms	Malignant Neoplasm	BEFREE	22279038		★★★★★ ★☆☆☆☆ Found in Text Mining only
Mammary Neoplasms	Mammary Neoplasms	BEFREE	22279038		★★★★★ ★☆☆☆☆ Found in Text Mining only
Neoplasms	Neoplasms	BEFREE	22279038		★★★★★ ★☆☆☆☆ Found in Text Mining only
Neuroblastoma	Neuroblastoma	BEFREE	17275818		★★★★★ ★☆☆☆☆ Found in Text Mining only
Neuroblastoma	Neuroblastoma	Pubtator	36430219	Associate	★★★★★ ★☆☆☆☆ Found in Text Mining only
Neurodegenerative Disorders	Neurodegenerative Disorders	BEFREE	28103900		★★★★★ ★☆☆☆☆ Found in Text Mining only
Refractory anemias	Anemia	BEFREE	17275818		★★★★★ ★☆☆☆☆ Found in Text Mining only
Rheumatoid Arthritis	Rheumatoid arthritis	BEFREE	17275818		★★★★★ ★☆☆☆☆ Found in Text Mining only

GDPD5 (glycerophosphodiester phosphodiesterase domain containing 5)