ENSG00000147050


Homo sapiens

Features
Gene ID: ENSG00000147050
  
Biological name :KDM6A
  
Synonyms : KDM6A / lysine demethylase 6A / O15550
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: X
Strand: 1
Band: p11.3
Gene start: 44873177
Gene end: 45112602
  
Corresponding Affymetrix probe sets: 203990_s_at (Human Genome U133 Plus 2.0 Array)   203991_s_at (Human Genome U133 Plus 2.0 Array)   203992_s_at (Human Genome U133 Plus 2.0 Array)   238220_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000443078
Ensembl peptide - ENSP00000437405
Ensembl peptide - ENSP00000478793
Ensembl peptide - ENSP00000483595
Ensembl peptide - ENSP00000367203
Ensembl peptide - ENSP00000372355
Ensembl peptide - ENSP00000398929
Ensembl peptide - ENSP00000399980
Ensembl peptide - ENSP00000405910
Ensembl peptide - ENSP00000408230
NCBI entrez gene - 7403     See in Manteia.
OMIM - 300128
RefSeq - XM_017029785
RefSeq - XM_011543963
RefSeq - XM_011543964
RefSeq - XM_011543965
RefSeq - XM_011543966
RefSeq - XM_011543967
RefSeq - XM_011543968
RefSeq - XM_011543969
RefSeq - XM_011543970
RefSeq - XM_011543971
RefSeq - XM_011543972
RefSeq - XM_011543973
RefSeq - XM_011543974
RefSeq - XM_011543975
RefSeq - XM_017029782
RefSeq - XM_017029783
RefSeq - XM_017029784
RefSeq - NM_001291415
RefSeq - NM_001291416
RefSeq - NM_001291417
RefSeq - NM_001291418
RefSeq - NM_001291421
RefSeq - NM_021140
RefSeq - XM_005272656
RefSeq - XM_005272659
RefSeq - XM_011543957
RefSeq - XM_011543958
RefSeq - XM_011543959
RefSeq - XM_011543960
RefSeq - XM_011543961
RefSeq - XM_011543962
RefSeq Peptide - NP_001278345
RefSeq Peptide - NP_001278346
RefSeq Peptide - NP_001278347
RefSeq Peptide - NP_001278350
RefSeq Peptide - NP_066963
RefSeq Peptide - NP_001278344
swissprot - H0Y6V5
swissprot - H7C1F1
swissprot - A0A087X0R0
swissprot - O15550
swissprot - A0A087WUN6
swissprot - F5H5V6
swissprot - F5H6S1
swissprot - F8W8R6
swissprot - H0Y5J3
swissprot - H0Y6I7
Ensembl - ENSG00000147050
  
Related genetic diseases (OMIM): 300867 - Kabuki syndrome 2, 300867
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
 kdm6aENSDARG00000061759Danio rerio
 ENSGALG00000016217Gallus gallus
 Kdm6aENSMUSG00000037369Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
UTY / O14607 / ubiquitously transcribed tetratricopeptide repeat containing, Y-linkedENSG0000018387886
KDM6B / O15054 / lysine demethylase 6BENSG0000013251032


Protein motifs (from Interpro)
Interpro ID Name
 IPR001440  Tetratricopeptide repeat 1
 IPR003347  JmjC domain
 IPR011990  Tetratricopeptide-like helical domain superfamily
 IPR013026  Tetratricopeptide repeat-containing domain
 IPR019734  Tetratricopeptide repeat
 IPR029516  Histone demethylase UTY


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001701 in utero embryonic development IEA
 biological_processGO:0001843 neural tube closure IEA
 biological_processGO:0003007 heart morphogenesis IEA
 biological_processGO:0003016 respiratory system process IEA
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006338 chromatin remodeling IEA
 biological_processGO:0007507 heart development IEA
 biological_processGO:0010468 regulation of gene expression IEA
 biological_processGO:0010628 positive regulation of gene expression IEA
 biological_processGO:0021915 neural tube development IEA
 biological_processGO:0032525 somite rostral/caudal axis specification IEA
 biological_processGO:0035264 multicellular organism growth IEA
 biological_processGO:0048333 mesodermal cell differentiation IEA
 biological_processGO:0048568 embryonic organ development IEA
 biological_processGO:0048570 notochord morphogenesis IEA
 biological_processGO:0051568 histone H3-K4 methylation ISS
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0060070 canonical Wnt signaling pathway IEA
 biological_processGO:0071557 histone H3-K27 demethylation IEA
 biological_processGO:0072358 cardiovascular system development IEA
 cellular_componentGO:0005634 nucleus IDA
 cellular_componentGO:0005654 nucleoplasm TAS
 cellular_componentGO:0035097 histone methyltransferase complex IEA
 cellular_componentGO:0044666 MLL3/4 complex IDA
 molecular_functionGO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IEA
 molecular_functionGO:0005515 protein binding IEA
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0031490 chromatin DNA binding IEA
 molecular_functionGO:0032452 histone demethylase activity TAS
 molecular_functionGO:0042802 identical protein binding IEA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051213 dioxygenase activity IEA
 molecular_functionGO:0071558 histone demethylase activity (H3-K27 specific) IEA


Pathways (from Reactome)
Pathway description
HDMs demethylate histones
Activation of anterior HOX genes in hindbrain development during early embryogenesis


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000006 Autosomal dominant 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 heterozygotes. In the context of medical genetics, an autosomal dominant disorder is caused when a single copy of the mutant allele is present. Males and females are affected equally, and can both transmit the disorder with a risk of 50% for each child of inheriting the mutant allele." [HPO:curators]
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 HP:0000028 Cryptorchidism "Absence of one or both testes from the scrotum owing to failure of the testis or testes to descend through the inguinal canal to the testis." [HPO:curators]
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 HP:0000047 Hypospadias "Displacement of the urethral opening on the ventral (inferior) surface of the penis." [HPO:curators]
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 HP:0000054 Micropenis 
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 HP:0000074 Ureteropelvic junction obstruction 
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 HP:0000081 Duplicated collecting system 
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 HP:0000126 Hydronephrosis 
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 HP:0000164 Abnormality of the teeth "Any abnormality of the primary (deciduous) or permanent teeth." [HPO:curators]
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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: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:0000238 Hydrocephalus 
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 HP:0000252 Microcephaly "Microcephaly is a neurodevelopmental disorder in which the circumference of the head is more than two standard deviations smaller than the age- and gender-dependent norm." [HPO:curators]
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 HP:0000298 Mask-like facies 
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 HP:0000358 Posteriorly rotated ears "A type of `abnormal location of the ears` (HP:0000357) in which the position of the ears is characterized by posterior rotation (the superior part of the ears is rotated towards the back of the head, and the inferior part of the ears towards the front)." [HPO:probinson]
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 HP:0000365 Hearing loss 
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 HP:0000378 Cup-shaped ears "Small auricles that grow forward over the meatus (ear canal)." [HPO:curators]
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 HP:0000384 Preauricular skin tag "A rudimentary tag of ear tissue often containing a core of cartilage and located just in front of the auricle (outer part of the ear)." [HPO:curators]
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 HP:0000400 Large ears 
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 HP:0000403 Recurrent otitis media 
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 HP:0000405 Hearing loss, conductive 
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 HP:0000407 Hearing loss, sensorineural "Hearing loss caused by damage or dysfunction of the auditory nerve (cranial nerve VIII)." [HPO:curators]
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 HP:0000411 Protruding ears 
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 HP:0000431 Broad nasal bridge "Increased horizontal dimension of the upper, bony part of the nose." [HPO:curators]
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 HP:0000437 Flat nasal tip 
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 HP:0000455 Broad nasal tip 
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 HP:0000482 Microcornea "A congenital abnormality of the `cornea` (FMA:58238) in which the cornea and the anterior segment of the eye are smaller than normal. The horizontal diameter of the cornea does not reach 10 mm even in adulthood." [HPO:probinson]
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 HP:0000486 Strabismus "Strabismus (also known as squint) is a condition in which the eyes are not properly aligned with each other." [HPO:curators]
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 HP:0000508 Ptosis "Drooping of the eyelid." [HPO:curators]
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 HP:0000527 Long eyelashes "Mid upper eyelash length >10 mm or increased length of the eyelashes (subjective)." [pmid:19125427]
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 HP:0000535 Sparse eyebrows 
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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:0000592 Blue sclerae 
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 HP:0000637 Wide palpebral fissures 
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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:0000668 Hypodontia "Hypodontia describes a situation when there are fewer than the normal number of teeth, whereby 6 teeth or fewer teeth are missing (oligodontia refers to the condition of missing more than 6 teeth and the congenital absence of all teeth is called anodontia)." [HPO:curators]
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 HP:0000687 Widely spaced teeth 
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 HP:0000689 Dental malocclusion "Dental malocclusion refers to an abnormality of the occlusion, or alignment, of the teeth and the way the upper and lower teeth fit together, resulting in overcrowding of teeth or in abnormal bite patterns." [HPO:curators]
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 HP:0000691 Microdontia 
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 HP:0000695 Neonatal teeth 
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 HP:0000708 Behavioural/Psychiatric Abnormality 
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 HP:0000769 Abnormality of the breasts 
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 HP:0000776 Diaphragmatic hernia "Diaphragmatic hernia is the result of a developmental defect causing an abnormal opening in the diaphragm, through which abdominal organs (stomach, spleen, liver, and intestines) can protrude into the thoracic cavity. This usually causes respiratory distress in the newborn period." [HPO:curators]
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 HP:0000826 Precocious puberty "The onset of secondary sexual characteristics before a normal age. Although it is difficult to define normal age ranges because of the marked variation with which puberty begins in normal children, precocious puberty can be defined as the onset of puberty before the age of 8 years in girls or 9 years in boys." [HPO:curators]
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 HP:0000851 Congenital hypothyroidism 
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 HP:0000957 Cafe-au-lait spots 
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 HP:0001007 Hirsutism "Abnormally increased hair growth." [HPO:curators]
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 HP:0001156 Brachydactyly 
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 HP:0001212 Prominent fingertip pads "A soft tissue prominence of the ventral aspects of the fingertips. The term "persistent fetal fingertip pads" is often used as a synonym, but should better not be used because it implies knowledge of history of the patient which often does not exist." [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:0001252 Muscular hypotonia "Muscular hypotonia is an abnormally low muscle tone (the amount of tension or resistance to movement in a muscle), often involving reduced muscle strength. Hypotonia is characterized by a diminished resistance to passive stretching." [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:0001290 Generalized hypotonia "Generalized muscular hypotonia (abnormally low muscle tone)." [HPO:curators]
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 HP:0001374 Congenital hip dislocation 
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 HP:0001382 Joint hypermobility "The ability of a joint to move beyond its normal range of motion." [HPO:curators]
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 HP:0001423 X-linked dominant inheritance "A mode of inheritance that is observed for dominant traits related to a gene encoded on the X chromosome. In the context of medical genetics, X-linked dominant disorders tend to manifest very severely in affected males. The severity of manifestation in females may depend on the degree of skewed X inactivation." [HPO:curators]
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 HP:0001508 Failure to thrive 
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 HP:0001513 Obesity "A status with BODY WEIGHT that is grossly above the acceptable or desirable weight, usually due to accumulation of excess FATS in the body. The standards may vary with age, sex, genetic or cultural background. In the BODY MASS INDEX, a BMI greater than 30.0 kg/m2 is considered obese, and a BMI greater than 40.0 kg/m2 is considered morbidly obese (MORBID OBESITY)." [MeSH:D009765]
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 HP:0001629 Ventricular septal defect "A hole between the two bottom chambers (ventricles) of the heart. The defect is centered around the most superior aspect of the ventricular septum." [HPO:curators]
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 HP:0001631 Atrial septal defect "Atrial septal defect (ASD) is a congenital heart defect that enables blood flow between the left and right atria via the interatrial septum. The three common types of ASD are sinus venosus defects, ostium secundum defects, and ostium primum defects." [HPO:curators]
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 HP:0001642 Pulmonic stenosis "A narrowing of the right ventricular outflow tract that can occur at the pulmonary valve (valvular stenosis) or just below the pulmonary valve (infundibular stenosis). Infundibular pulmonic stenosis is mostly caused by overgrowth of the heart muscle wall (hypertrophy of the septoparietal trabeculae). Pulmonic stenosis is often seen as a part of Fallot s tetralogy, in which case the events leading to the formation of the overriding aorta are also believed to be a cause of the pulmonic stenosis. The pulmonic stenosis is the major cause of the malformations seen in patients with Fallot tetralogy, with the other associated malformations acting as compensatory mechanisms to the pulmonic stenosis. The degree of stenosis varies between individuals with TOF, and is the primary determinant of symptoms and severity. This malformation is infrequently described as sub-pulmonary stenosis or subpulmonary obstruction." [HPO:curators]
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 HP:0001671 Abnormality of the cardiac septa 
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 HP:0001680 Coarctation of aorta "Coarctation of the aorta is a narrowing or constriction of the aorta just distal to the origin of the left subclavian artery." [HPO:curators]
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 HP:0001878 Hemolytic anemia 
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 HP:0001973 Immune thrombocytopenia 
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 HP:0001998 Neonatal hypoglycemia 
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 HP:0002000 Columella, short "Reduced distance from the anterior border of the naris to the subnasale." [pmid:19152422]
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 HP:0002023 Anal atresia "Congenital absence of the anus, i.e., the opening at the bottom end of the intestinal tract." [HPO:curators]
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 HP:0002024 Malabsorption 
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 HP:0002025 Anal stenosis "Abnormal narrowing of the anal opening." [HPO:curators]
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 HP:0002100 Aspiration pneumonia 
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 HP:0002119 Ventriculomegaly 
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 HP:0002120 Cerebral cortical atrophy 
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 HP:0002353 EEG abnormalities "Abnormality observed by electroencephalogram (EEG), which is used to record of the brain s spontaneous electrical activity from multiple electrodes placed on the scalp." [HPO:curators]
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 HP:0002553 Arched eyebrows 
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 HP:0002566 Intestinal malrotation "An abnormality of the intestinal rotation and fixation that normally occurs during the development of the gut. This can lead to volvulus, or twisting of the intestine that causes obstruction and necrosis." [HPO:curators]
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 HP:0002650 Scoliosis "The presence of an abnormal lateral curvature of the spine." [HPO:curators]
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 HP:0002719 Recurrent infections 
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 HP:0002761 Generalized joint laxity "Joint hypermobility (ability of a joint to move beyond its normal range of motion) affecting many or all joints of the body." [HPO:curators]
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 HP:0002827 Dislocated hips 
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 HP:0002937 Hemivertebrae 
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 HP:0003316 Butterfly vertebrae 
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 HP:0003468 Abnormalities of the vertebrae 
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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:0004325 Decreased body weight 
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 HP:0004467 Preauricular sinus "The preauricular sinus is a benign congenital lesion of the preauricular soft tissue consisting of a blind-ending narrow tube or pit. It is also known as preauricular pit, preauricular fistula, preauricular tract and preauricular cyst. It can be asymptomatic or present as an infected and discharging sinus. It presents as a small pit adjacent to the external ear usually located at the anterior margin of the ascending limb of the helix." [HPO:curators]
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 HP:0004736 Ectopic kidney with fusion 
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 HP:0005218 Anoperineal fistula "The presence of a fistula (abnormal tunnel) between the anal region and the perineum (diamond-shaped region of the body between the pubic arch and the anus)." [HPO:curators]
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 HP:0005338 Sparse lateral eyebrows 
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 HP:0005692 Joint hyperflexibility 
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 HP:0005819 Abnormally short and broad middle phalanges 
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 HP:0006695 Tricuspid and mitral valves are replaced by a single inlet valve 
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 HP:0007477 Abnormal dermatoglyphics "An abnormality of dermatoglyphs (fingerprints), which are present on fingers, palms, toes, and soles." [HPO:curators]
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 HP:0007655 Eversion of lateral third of lower eyelids 
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 HP:0008678 Renal hypoplasia/aplasia 
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 HP:0008736 Hypoplasia of penis 
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 HP:0008872 Feeding problems in infancy 
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 HP:0008897 Growth retardation, progressive 
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 HP:0009237 Hypoplastic/small 5th finger "Hypoplastic/small 5th (little) finger." [HPO:curators]
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 HP:0010314 Premature thelarche "Premature development of the breasts." [HPO:curators]
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 HP:0011231 Prominent eyelashes "Eyelashes that draw the attention of the viewer due to increased density and/or length and/or curl without meeting the criteria of trichomegaly." [pmid:19125427]
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 HP:0011398 Central hypotonia "Reduced muscle tone secondary to an abnormality of the central nervous system." [DDD:fmuntoni]
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 HP:0011968 Feeding difficulties "Impaired ability to eat related to problems gathering food and getting ready to suck, chew, or swallow it." [ISCA:eriggs]
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 HP:0100267 Lip pits 
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 HP:0200055 Small hands 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

0 s.

 
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