ENSG00000099956


Homo sapiens

Features
Gene ID: ENSG00000099956
  
Biological name :SMARCB1
  
Synonyms : Q12824 / SMARCB1 / SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 22
Strand: 1
Band: q11.23
Gene start: 23786931
Gene end: 23838008
  
Corresponding Affymetrix probe sets: 212167_s_at (Human Genome U133 Plus 2.0 Array)   228898_s_at (Human Genome U133 Plus 2.0 Array)   229719_s_at (Human Genome U133 Plus 2.0 Array)   231324_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000489445
Ensembl peptide - ENSP00000494049
Ensembl peptide - ENSP00000495144
Ensembl peptide - ENSP00000494757
Ensembl peptide - ENSP00000494695
Ensembl peptide - ENSP00000494283
Ensembl peptide - ENSP00000263121
Ensembl peptide - ENSP00000340883
Ensembl peptide - ENSP00000383984
Ensembl peptide - ENSP00000385226
Ensembl peptide - ENSP00000388489
Ensembl peptide - ENSP00000489115
NCBI entrez gene - 6598     See in Manteia.
OMIM - 601607
RefSeq - XM_011530345
RefSeq - NM_001007468
RefSeq - NM_001317946
RefSeq - NM_003073
RefSeq Peptide - NP_003064
RefSeq Peptide - NP_001007469
RefSeq Peptide - NP_001304875
swissprot - B5MCL5
swissprot - A0A0U1RRB8
swissprot - G5E975
swissprot - A0A0U1RQQ2
swissprot - Q12824
swissprot - C9JTA6
Ensembl - ENSG00000099956
  
Related genetic diseases (OMIM): 162091 - {Schwannomatosis-1, susceptibility to}, 162091
  609322 - Rhabdoid tumors, somatic, 609322
  614608 - Coffin-Siris syndrome 3, 614608
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
 Q5U379ENSDARG00000033647Danio rerio
 smarcb1bENSDARG00000011594Danio rerio
 Q5ZK40ENSGALG00000005983Gallus gallus
 Q9Z0H3ENSMUSG00000000902Mus musculus


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


Protein motifs (from Interpro)
Interpro ID Name
 IPR006939  SNF5/SMARCB1/INI1
 IPR017393  Chromatin-remodeling complex component Sfh1/SNF5


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001188 RNA polymerase I transcriptional preinitiation complex assembly IEA
 biological_processGO:0001824 blastocyst development IEA
 biological_processGO:0001835 blastocyst hatching IEA
 biological_processGO:0006281 DNA repair IBA
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006337 nucleosome disassembly IDA
 biological_processGO:0006338 chromatin remodeling 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:0007049 cell cycle IEA
 biological_processGO:0007399 nervous system development IEA
 biological_processGO:0008285 negative regulation of cell proliferation IBA
 biological_processGO:0015074 DNA integration TAS
 biological_processGO:0016032 viral process IEA
 biological_processGO:0030154 cell differentiation IBA
 biological_processGO:0039692 single stranded viral RNA replication via double stranded DNA intermediate IDA
 biological_processGO:0043044 ATP-dependent chromatin remodeling HDA
 biological_processGO:0043923 positive regulation by host of viral transcription IMP
 biological_processGO:0045944 positive regulation of transcription by RNA polymerase II IDA
 biological_processGO:0051091 positive regulation of DNA-binding transcription factor activity IDA
 biological_processGO:0090240 positive regulation of histone H4 acetylation IMP
 biological_processGO:1900110 negative regulation of histone H3-K9 dimethylation IMP
 biological_processGO:1900113 negative regulation of histone H3-K9 trimethylation IMP
 biological_processGO:1901838 positive regulation of transcription of nucleolar large rRNA by RNA polymerase I IMP
 biological_processGO:1902661 positive regulation of glucose mediated signaling pathway IDA
 biological_processGO:2000617 positive regulation of histone H3-K9 acetylation IMP
 cellular_componentGO:0000228 nuclear chromosome IEA
 cellular_componentGO:0000790 nuclear chromatin HDA
 cellular_componentGO:0001650 fibrillar center IDA
 cellular_componentGO:0001741 XY body IEA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005654 nucleoplasm IDA
 cellular_componentGO:0005730 nucleolus IDA
 cellular_componentGO:0016514 SWI/SNF complex IDA
 cellular_componentGO:0032991 protein-containing complex HDA
 cellular_componentGO:0043231 intracellular membrane-bounded organelle IDA
 cellular_componentGO:0071564 npBAF complex ISS
 cellular_componentGO:0071565 nBAF complex ISS
 molecular_functionGO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding HDA
 molecular_functionGO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding HDA
 molecular_functionGO:0001164 RNA polymerase I CORE element sequence-specific DNA binding IMP
 molecular_functionGO:0002039 p53 binding IPI
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003713 transcription coactivator activity NAS
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0030957 Tat protein binding IPI
 molecular_functionGO:0031492 nucleosomal DNA binding HDA


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: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:0000256 Macrocephaly "The presence of an abnormally large `skull` (FMA:46565)." [HPO:probinson]
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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:0000322 Short philtrum 
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 HP:0000365 Hearing loss 
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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:0000696 Delayed eruption of secondary teeth 
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 HP:0000737 Irritability 
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 HP:0000741 Apathy 
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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:0001007 Hirsutism "Abnormally increased hair growth." [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: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:0001321 Cerebellar hypoplasia 
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 HP:0001324 Muscle weakness "Reduced strength of muscles." [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:0001376 Decreased mobility of joints 
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 HP:0001511 Intrauterine growth retardation 
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 HP:0002017 Nausea and vomiting 
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 HP:0002076 Migraine 
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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:0002514 Cerebral calcification "The presence of calcification within brain structures." [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: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:0002885 Medulloblastoma 
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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:0004372 Reduced consciousness/confusion 
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 HP:0004374 Hemiplegia/hemiparesis "Loss of strength in the arm, leg, and sometimes face on one side of the body. Hemiplegia refers to a severe or complete loss of strength, whereas hemiparesis refers to a relatively mild loss of strength." [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:0006824 Cranial nerve paralysis 
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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:0030392 Choroid plexus carcinoma "Intraventricular papillary neoplasm derived from choroid plexus epithelium. Plexus tumors are most common in the lateral and fourth ventricles; while 80% of lateral ventricle tumors present in children, fourth ventricle tumors are evenly distributed in all age groups. Clinically, choroid plexus tumors tend to cause hydrocephalus and increased intracranial pressure. Histologically, choroid plexus papillomas correspond to WHO grade I, choroid plexus carcinomas to WHO grade III." [HPO:probinson, pmid:11135453]
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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:0100021 Cerebral paralysis "Cerebral palsy describes a group of permanent disorders of the development of movement and posture, causing activity limitation, that are attributed to nonprogressive disturbances that occurred in the developing fetal or infant brain. The motor disorders of cerebral palsy are often accompanied by disturbances of sensation, perception, cognition, communication, and behaviour, by epilepsy, and by secondary musculoskeletal problems." [HPO:sdoelken]
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 HP:0100371 Aplasia/Hypoplasia of the distal phalanx of the 5th toe 
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 HP:0100836 Malignant neoplasm of the central nervous system 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000100462 PRMT5 / O14744 / protein arginine methyltransferase 5  / complex / reaction
 ENSG00000116455 WDR77 / Q9BQA1 / WD repeat domain 77  / complex / reaction
 ENSG00000173473 Q92922 / SMARCC1 / SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 1  / complex
 ENSG00000080503 P51531 / SMARCA2 / SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2  / complex
 ENSG00000139613 Q8TAQ2 / SMARCC2 / SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 2  / complex
 ENSG00000127616 P51532 / SMARCA4 / SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4  / complex
 ENSG00000067955 CBFB / Q13951 / core-binding factor beta subunit  / complex / reaction
 ENSG00000159216 RUNX1 / Q01196 / runt related transcription factor 1  / complex / reaction






 

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