ENSG00000156973


Homo sapiens

Features
Gene ID: ENSG00000156973
  
Biological name :PDE6D
  
Synonyms : O43924 / PDE6D / phosphodiesterase 6D
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 2
Strand: -1
Band: q37.1
Gene start: 231732425
Gene end: 231786272
  
Corresponding Affymetrix probe sets: 204091_at (Human Genome U133 Plus 2.0 Array)   216883_x_at (Human Genome U133 Plus 2.0 Array)   231065_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000387108
Ensembl peptide - ENSP00000399098
Ensembl peptide - ENSP00000287600
NCBI entrez gene - 5147     See in Manteia.
OMIM - 602676
RefSeq - XM_011511342
RefSeq - NM_001291018
RefSeq - NM_002601
RefSeq Peptide - NP_001277947
RefSeq Peptide - NP_002592
swissprot - B8ZZK5
swissprot - O43924
swissprot - C9IZ52
swissprot - Q6IB24
Ensembl - ENSG00000156973
  
Related genetic diseases (OMIM): 615665 - ?Joubert syndrome 22, 615665
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 pde6dENSDARG00000074892Danio rerio
 PDE6DENSGALG00000033062Gallus gallus
 Pde6dENSMUSG00000026239Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
No match


Protein motifs (from Interpro)
Interpro ID Name
 IPR008015  GMP phosphodiesterase, delta subunit
 IPR014756  Immunoglobulin E-set
 IPR017287  Retinal rod rhodopsin-sensitive cGMP 3", 5"-cyclic phosphodiesterase, delta subunit
 IPR037036  GMP phosphodiesterase, delta subunit superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0007601 visual perception TAS
 biological_processGO:0034260 negative regulation of GTPase activity IEA
 biological_processGO:0050896 response to stimulus IEA
 cellular_componentGO:0005737 cytoplasm IEA
 cellular_componentGO:0005829 cytosol TAS
 cellular_componentGO:0005856 cytoskeleton IEA
 cellular_componentGO:0005929 cilium TAS
 cellular_componentGO:0016020 membrane IEA
 cellular_componentGO:0030659 cytoplasmic vesicle membrane IEA
 cellular_componentGO:0031410 cytoplasmic vesicle IEA
 cellular_componentGO:0042995 cell projection IEA
 molecular_functionGO:0004114 3",5"-cyclic-nucleotide phosphodiesterase activity IEA
 molecular_functionGO:0005095 GTPase inhibitor activity IEA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0017137 Rab GTPase binding IPI


Pathways (from Reactome)
Pathway description
ARL13B-mediated ciliary trafficking of INPP5E


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000007 Autosomal recessive inheritance "A mode of inheritance that is observed for traits related to a gene encoded on one of the autosomes (i.e., the human chromosomes 1-22) in which a trait manifests in homozygotes. In the context of medical genetics, autosomal recessive disorders manifest in homozygotes (with two copies of the mutant allele) or compound heterozygotes (whereby each copy of a gene has a distinct mutant allele)." [HPO:curators]
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 HP:0000089 Renal hypoplasia 
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 HP:0000104 Renal agenesis 
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 HP:0000175 Cleft palate "Cleft palate is a developmental defect of the `palate` (FMA:54549) resulting from a failure of fusion of the palatine processes." [HPO:curators]
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 HP:0000180 Lobulated tongue 
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 HP:0000190 Frenular abnormality "An abnormality of the lingual frenulum, that is of the small fold of mucous membrane that attaches the tongue to the floor of the mouth." [HPO:probinson]
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 HP:0000199 Tongue nodules 
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 HP:0000218 High palate "Height of the palate more than 2 SD above the mean (objective) or palatal height at the level of the first permanent molar more than twice the height of the teeth (subjective)." [pmid:19125428]
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 HP:0000276 Long face 
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 HP:0000286 Epicanthus "An epicanthal fold is a semilunar fold of skin that extends from the upper eyelid across the medial canthal area to the lower eyelid." [HPO:curators]
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 HP:0000316 Hypertelorism 
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 HP:0000347 Mandibular hypoplasia "Underdevelopment of the mandible." [HPO:curators]
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 HP:0000368 Low-set, posteriorly rotated ears 
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 HP:0000405 Hearing loss, conductive 
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 HP:0000426 Prominent nasal bridge 
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 HP:0000455 Broad nasal tip 
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 HP:0000550 Abolished electroretinogram (ERG) 
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 HP:0000565 Esotropia 
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 HP:0000568 Microphthalmos "A developmental anomaly characterized by abnormal smallness of one or both eyes." [HPO:curators]
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 HP:0000589 Coloboma "A developmental defect characterized by a cleft of some portion of the `eye` (FMA:54448`) or ocular adnexa." [HPO:probinson]
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 HP:0000639 Nystagmus "Rhythmic, involuntary oscillations of one or both eyes related to abnormality in fixation, conjugate gaze, or vestibular mechanisms." [HPO:curators]
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 HP:0001156 Brachydactyly 
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 HP:0001159 Syndactyly "Webbing or fusion of the fingers or toes, involving soft parts only or including bone structure. Bony fusions are revered to as "bony" Syndactyly if the fusion occurs in a radio-ulnar axis. Fusions of bones of the fingers or toes in a proximo-distal axis are refered to as "Symphalangism"." [HPO:curators]
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 HP:0001161 Polydactyly (hands) 
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 HP:0001162 Postaxial polydactyly (hands) "Supernumerary digits located at the ulnar side of the hand." [HPO:curators]
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 HP:0001249 Mental retardation 
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 HP:0001250 Seizures "Seizures are an intermittent `abnormality of the central nervous system` (FMA:HP:0002011) due to a sudden, excessive, disorderly discharge of cerebral neurons and characterized clinically by some combination of disturbance of sensation, loss of consciousness, impairment of psychic function, or convulsive movements." [HPO:probinson]
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 HP:0001251 Ataxia "Ataxia is a nonspecific neurological sign and symptom consisting of gross lack of coordination of muscle movements. Ataxia is caused by dysfunction of one or more parts of the nervous system including the cerebellum, the sensory nervous system, the vestibular system, or the cerebral cortex." [HPO:curators]
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 HP:0001263 Developmental retardation "A delay in the achievement of motor or mental milestones manifested prior to age 18 and generally associated with lifelong mental and/or physical impairments." [HPO:curators]
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 HP:0001288 Gait disturbance "The term gait disturbance can refer to any disruption of the ability to walk. In general, this can refer to neurological diseases but also fractures or other sources of pain that is triggered upon walking. However, in the current context gait disturbance refers to difficulty walking on the basis of a neurological or muscular disease." [HPO:curators]
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 HP:0001290 Generalized hypotonia "Generalized muscular hypotonia (abnormally low muscle tone)." [HPO:curators]
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 HP:0001320 Cerebellar vermis hypoplasia 
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 HP:0001337 Tremor "An unintentional, oscillating to-and-fro muscle movement." [HPO:curators]
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 HP:0001508 Failure to thrive 
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 HP:0001511 Intrauterine growth retardation 
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 HP:0001627 Cardiac abnormality "An abnormality of the `heart` (FMA:7088)." [HPO:probinson]
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 HP:0001829 Polydactyly (feet) 
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 HP:0001999 Facial dysmorphism 
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 HP:0002007 Frontal bossing "The presence of an unusually prominent forehead." [HPO:curators]
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 HP:0002104 Apnea "Lack of breathing with no movement of the respiratory muscles and no exchange of air in the lungs. This term refers to a disposition to have recurrent episodes of apnea rather than to a single event." [HPO:curators]
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 HP:0002269 Neuronal migration disorder 
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 HP:0002419 Molar tooth sign on MRI 
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 HP:0002444 Hypothalamic hamartoma "Hypothalamic hamartoma is a malformation, not a tumor. Hypothalamic hamartomas grow at the rate of, or slower than, the surrounding brain tissue. A hamartoma of the hypothalamus appears as a non-enhancing mass in the floor of the third ventricle posterior to the optic chiasm that is isointense to grey matter on T1 and T2 pulse sequences of an MRI, but may have distinct intensity on FLAIR (neither cranial CT examination nor cranial ultrasound examination is adequate for diagnosis of hypothalamic hamartom). Individuals with hypothalamic hamartomas may have neurologic symptoms, although most are asymptomatic. Removal of the hypothalamic hamartoma is not indicated and often results in iatrogenic pituitary insufficiency." [HPO:curators]
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 HP:0002553 Arched eyebrows 
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 HP:0002876 Tachypnea, episodic 
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 HP:0004322 Decreased body height "A height below that which is expected according to age and gender norms. Although there is no universally accepted definition of short stature, many refer to "short stature" as height more than 2 standard deviations below the mean for age and gender (or below the 3rd percentile for age and gender dependent norms)." [HPO:curators]
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 HP:0004422 Biparietal narrowing "A narrowing of the biparietal diameter (i.e., of the transverse distance between the protuberances of the two parietal bones of the skull)." [HPO:curators]
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 HP:0006145 Central Y-shaped metacarpal "A central Y-shaped metacarpal is the result of a partial fusion of two central metacarpals (i.e., metacarpals 2-4) of the hand, with the two arms of the Y pointing in the distal direction. Central Y-shaped metacarpals may be seen as a result of a central polydactyly with partial fusion of the duplicated metacarpal." [HPO:curators]
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 HP:0007036 Hypoplasia of olfactory tract 
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 HP:0007370 Aplasia/Hypoplasia of the corpus callosum "Absence or underdevelopment of the corpus callosum." [HPO:curators]
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 HP:0007973 Retinal dysplasia 
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 HP:0008689 Bilateral cryptorchidism 
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 HP:0008872 Feeding problems in infancy 
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 HP:0009084 Midline notch of upper alveolar ridge 
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 HP:0011802 Hamartoma of tongue 
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 HP:0040019 Finger clinodactyly 
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 HP:0100258 Preaxial polydactyly "A form of polydactyly in which the extra digit or digits are localized on the side of the thumb or great toe." [HPO:probinson]
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 HP:0100260 Central polydactyly 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000169379 ARL13B / Q3SXY8 / ADP ribosylation factor like GTPase 13B  / complex / reaction
 ENSG00000148384 INPP5E / Q9NRR6 / inositol polyphosphate-5-phosphatase E  / reaction / complex






 

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contact: otassy@igbmc.fr