ENSG00000117713


Homo sapiens

Features
Gene ID: ENSG00000117713
  
Biological name :ARID1A
  
Synonyms : ARID1A / AT-rich interaction domain 1A / O14497
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 1
Strand: 1
Band: p36.11
Gene start: 26693236
Gene end: 26782110
  
Corresponding Affymetrix probe sets: 207591_s_at (Human Genome U133 Plus 2.0 Array)   210649_s_at (Human Genome U133 Plus 2.0 Array)   212152_x_at (Human Genome U133 Plus 2.0 Array)   218917_s_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000432368
Ensembl peptide - ENSP00000432473
Ensembl peptide - ENSP00000490650
Ensembl peptide - ENSP00000489842
Ensembl peptide - ENSP00000478955
Ensembl peptide - ENSP00000436692
Ensembl peptide - ENSP00000320485
Ensembl peptide - ENSP00000363267
Ensembl peptide - ENSP00000387636
Ensembl peptide - ENSP00000390317
NCBI entrez gene - 8289     See in Manteia.
OMIM - 603024
RefSeq - NM_139135
RefSeq - NM_006015
RefSeq Peptide - NP_006006
RefSeq Peptide - NP_624361
swissprot - H0Y488
swissprot - H0YCU6
swissprot - H0YEW5
swissprot - E9PQW6
swissprot - O14497
swissprot - A0A1B0GVT5
swissprot - A0A1B0GTU5
swissprot - A0A087WUV6
Ensembl - ENSG00000117713
  
Related genetic diseases (OMIM): 614607 - Coffin-Siris syndrome 2, 614607

This gene has been taged as a transcription factor by TFT
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
 arid1aaENSDARG00000101710Danio rerio
 arid1abENSDARG00000101891Danio rerio
 ENSGALG00000046659Gallus gallus
 ENSGALG00000044001Gallus gallus
 ENSGALG00000029316Gallus gallus
 ENSGALG00000045030Gallus gallus
 ENSGALG00000043936Gallus gallus
 A2BH40ENSMUSG00000007880Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
ARID1B / Q8NFD5 / AT-rich interaction domain 1BENSG0000004961853
ARID3B / Q8IVW6 / AT-rich interaction domain 3BENSG000001793616
ARID3A / Q99856 / AT-rich interaction domain 3AENSG000001160175
A6NKF2 / ARID3C / AT-rich interaction domain 3CENSG000002051434


Protein motifs (from Interpro)
Interpro ID Name
 IPR001606  ARID DNA-binding domain
 IPR011989  Armadillo-like helical
 IPR016024  Armadillo-type fold
 IPR021906  SWI/SNF-like complex subunit BAF250/Osa
 IPR030094  SWI/SNF-like complex subunit BAF250a
 IPR033388  SWI/SNF-like complex subunit BAF250, C-terminal
 IPR036431  ARID DNA-binding domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000122 negative regulation of transcription by RNA polymerase II IEA
 biological_processGO:0001704 formation of primary germ layer IEA
 biological_processGO:0001843 neural tube closure IEA
 biological_processGO:0003205 cardiac chamber development IEA
 biological_processGO:0003408 optic cup formation involved in camera-type eye development IEA
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006337 nucleosome disassembly IDA
 biological_processGO:0006338 chromatin remodeling IEA
 biological_processGO:0006344 maintenance of chromatin silencing IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0006357 regulation of transcription by RNA polymerase II NAS
 biological_processGO:0007369 gastrulation IEA
 biological_processGO:0007399 nervous system development IEA
 biological_processGO:0007566 embryo implantation IEA
 biological_processGO:0019827 stem cell population maintenance IEA
 biological_processGO:0030520 intracellular estrogen receptor signaling pathway IDA
 biological_processGO:0030521 androgen receptor signaling pathway IDA
 biological_processGO:0030900 forebrain development IEA
 biological_processGO:0042766 nucleosome mobilization TAS
 biological_processGO:0042921 glucocorticoid receptor signaling pathway IDA
 biological_processGO:0043044 ATP-dependent chromatin remodeling IEA
 biological_processGO:0045893 positive regulation of transcription, DNA-templated IDA
 biological_processGO:0048096 chromatin-mediated maintenance of transcription TAS
 biological_processGO:0055007 cardiac muscle cell differentiation IEA
 biological_processGO:0060674 placenta blood vessel development IEA
 biological_processGO:1901998 toxin transport IEA
 cellular_componentGO:0000790 nuclear chromatin IDA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005654 nucleoplasm IDA
 cellular_componentGO:0016514 SWI/SNF complex IDA
 cellular_componentGO:0070603 SWI/SNF superfamily-type complex IEA
 cellular_componentGO:0071564 npBAF complex ISS
 cellular_componentGO:0071565 nBAF complex ISS
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003713 transcription coactivator activity NAS
 molecular_functionGO:0005488 binding IEA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0016922 nuclear receptor binding IPI
 molecular_functionGO:0031491 nucleosome binding IEA


Pathways (from Reactome)
Pathway description
RMTs methylate histone arginines
RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known


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:0000086 Ectopic kidney "A developmental defect in which a kidney is located in an abnormal anatomic position." [HPO:curators]
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 HP:0000126 Hydronephrosis 
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 HP:0000154 Wide mouth "Abnormally wide mouth." [HPO:curators]
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 HP:0000158 Macroglossia "Increased length and width of the tongue." [pmid:19125428]
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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:0000179 Prominent lower lip "Increased thickness of the lower lip, leading to a prominent appearance of the lower lip." [HPO:curators]
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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:0000280 Coarse facial features 
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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:0000294 Low frontal hairline "A condition in which the scalp hair is present at lower than usual areas of the forehead." [HPO:curators]
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 HP:0000322 Short philtrum 
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 HP:0000365 Hearing loss 
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 HP:0000377 Abnormal form of ears "Abnormal form of the out part of the ear (also referred to as the auricle or pinna)." [HPO:curators]
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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:0000445 Broad nose 
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 HP:0000457 Flat nose 
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 HP:0000463 Nares, anteverted "Anteriorly-facing nostrils viewed with the head in the Frankfurt horizontal and the eyes of the observer level with the eyes of the subject." [pmid:19152422]
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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:0000505 Impaired vision 
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 HP:0000508 Ptosis "Drooping of the eyelid." [HPO:curators]
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 HP:0000518 Cataract "A cataract is an opacity or clouding that develops in the crystalline `lens` (FMA:58241) of the eye or in its `capsule` (FMA:58881)." [HPO:probinson]
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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:0000574 Thick eyebrows 
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 HP:0000632 Lacrimation abnormality 
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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:0000750 Impaired language development 
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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:0000889 Abnormality of the clavicles "Any abnormality of the clavicles (collar bones)." [HPO:curators]
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 HP:0000965 Cutis marmorata 
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 HP:0000998 Hypertrichosis "Hypertrichosis is increased hair growth that is abnormal in quantity or location." [HPO:curators]
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 HP:0001156 Brachydactyly 
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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:0001273 Abnormality of the corpus callosum "Abnormality of the corpus callosum, which is a broad thick band of nerve fibers that connects the right and left cerebral hemispheres." [HPO:curators]
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 HP:0001290 Generalized hypotonia "Generalized muscular hypotonia (abnormally low muscle tone)." [HPO:curators]
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 HP:0001305 Dandy-Walker malformation "A congenital brain malformation typically characterized by incomplete formation of the cerebellar vermis, dilation of the fourth ventricle, and enlargement of the posterior fossa. In layman s terms, Dandy Walker malformation is a cyst in the cerebellum (typically symmetrical) that is involved with the fourth ventricle. This may interfere with the body s ability to drain cerebrospinal fluid from the brain, resulting in hydrocephalus. Dandy Walker cysts are formed during early embryonic development, while the brain forms. The cyst in the cerebellum typically has several blood vessels running through it connecting to the brain, thereby prohibiting surgical removal." [HPO:curators]
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 HP:0001338 Partial agenesis of the corpus callosum "A partial failure of the development of the corpus callosum." [HPO:curators]
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 HP:0001511 Intrauterine growth retardation 
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 HP:0001792 Nail hypoplasia "Underdeveloped `fingernails` (FMA:54327) or `toenails` (FMA:54328)." [HPO:probinson]
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 HP:0002079 Hypoplasia of the corpus callosum "Underdevelopment of the corpus callosum." [HPO:curators]
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 HP:0002205 Recurrent respiratory infections 
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 HP:0002209 Sparse scalp hair "Sparseness of the `head hair` (FMA:54241)." [HPO:probinson]
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 HP:0002217 Slow-growing hair 
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 HP:0002230 Generalized hirsutism "Abnormally increased hair growth over much of the entire body." [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:0002673 Coxa valga "Coxa valga is a deformity of the hip in which the angle between the femoral shaft and the femoral neck is increased compared to age-adjusted values (about 150 degrees in newborns gradually reducing to 120-130 degrees in adults)." [HPO:curators]
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 HP:0002719 Recurrent infections 
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 HP:0002750 Delayed skeletal maturation "A decreased rate of skeletal maturation. Delayed skeletal maturation can be diagnosed on the basis of an estimation of the bone age from radiographs of specific bones in the human body." [HPO:curators]
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 HP:0002808 Kyphosis 
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 HP:0003042 Elbow dislocation "A dislocation affecting the elbow joint, where the radius, ulna, and humerus meet." [HPO:curators]
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 HP:0003272 Abnormality of the hip "An abnormality of the hip joint or the surrounding anatomic region." [HPO:curators]
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 HP:0003298 Spina bifida occulta "The closed form of spina bifida." [HPO:curators]
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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:0005108 Abnormality of the intervertebral disks 
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 HP:0005280 Depressed nasal root and bridge 
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 HP:0005692 Joint hyperflexibility 
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 HP:0006498 Aplasia/Hypoplasia of the patella "Absence or underdevelopment of the patella." [HPO:curators]
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 HP:0007360 Aplasia/Hypoplasia of the cerebellum 
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 HP:0007598 Bilateral single palmar creases 
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 HP:0008398 Hypoplastic to absent fifth finger- and toenails 
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 HP:0008678 Renal hypoplasia/aplasia 
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 HP:0008872 Feeding problems in infancy 
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 HP:0009239 Aplasia/Hypoplasia of the distal phalanx of the 5th finger 
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 HP:0009835 Aplasia/Hypoplasia of the distal phalanges of the hand "Absence or underdevelopment of the distal phalanges." [HPO:curators]
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 HP:0009882 Hypoplasia of the distal phalanges of the hand 
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 HP:0011937 Hypoplastic fifth toenail "Underdeveloped nails of the fifth toes." [HPO:probinson]
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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:0030680 Abnormality of cardiovascular system morphology "Any structural anomaly of the heart and great vessels." []
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 HP:0100371 Aplasia/Hypoplasia of the distal phalanx of the 5th toe 
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 HP:0200104 Absent fifth fingernail 
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 HP:0200105 Absent fifth toenail 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

1 s.

 
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