ENSG00000088305


Homo sapiens

Features
Gene ID: ENSG00000088305
  
Biological name :DNMT3B
  
Synonyms : DNA methyltransferase 3 beta / DNMT3B / Q9UBC3
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 20
Strand: 1
Band: q11.21
Gene start: 32762385
Gene end: 32809356
  
Corresponding Affymetrix probe sets: 220668_s_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000412305
Ensembl peptide - ENSP00000201963
Ensembl peptide - ENSP00000313397
Ensembl peptide - ENSP00000328547
Ensembl peptide - ENSP00000337764
Ensembl peptide - ENSP00000403169
NCBI entrez gene - 1789     See in Manteia.
OMIM - 602900
RefSeq - XM_011528654
RefSeq - NM_001207055
RefSeq - NM_001207056
RefSeq - NM_006892
RefSeq - NM_175848
RefSeq - NM_175849
RefSeq - NM_175850
RefSeq - XM_011528653
RefSeq Peptide - NP_787046
RefSeq Peptide - NP_787044
RefSeq Peptide - NP_787045
RefSeq Peptide - NP_008823
RefSeq Peptide - NP_001193985
RefSeq Peptide - NP_001193984
swissprot - Q9UBC3
Ensembl - ENSG00000088305
  
Related genetic diseases (OMIM): 242860 - Immunodeficiency-centromeric instability-facial anomalies syndrome 1, 242860

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
 dnmt3bb.1ENSDARG00000036791Danio rerio
 DNMT3BENSGALG00000041461Gallus gallus
 Dnmt3bENSMUSG00000027478Mus musculus
 Dnmt3cENSMUSG00000082079Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
DNMT3A / Q9Y6K1 / DNA methyltransferase 3 alphaENSG0000011977249
DNMT3L / Q9UJW3 / DNA methyltransferase 3 likeENSG0000014218216
FP565260.4ENSG000002794936


Protein motifs (from Interpro)
Interpro ID Name
 IPR000313  PWWP domain
 IPR001525  C-5 cytosine methyltransferase
 IPR011011  Zinc finger, FYVE/PHD-type
 IPR018117  DNA methylase, C-5 cytosine-specific, active site
 IPR025766  ADD domain
 IPR029063  S-adenosyl-L-methionine-dependent methyltransferase
 IPR030488  DNA (cytosine-5)-methyltransferase 3B, ADD domain


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000122 negative regulation of transcription by RNA polymerase II IDA
 biological_processGO:0001666 response to hypoxia IEA
 biological_processGO:0006306 DNA methylation TAS
 biological_processGO:0009636 response to toxic substance IEA
 biological_processGO:0010212 response to ionizing radiation IEA
 biological_processGO:0010468 regulation of gene expression IEA
 biological_processGO:0010628 positive regulation of gene expression IMP
 biological_processGO:0014823 response to activity IEA
 biological_processGO:0031000 response to caffeine IEA
 biological_processGO:0032259 methylation IEA
 biological_processGO:0032355 response to estradiol IEA
 biological_processGO:0033189 response to vitamin A IEA
 biological_processGO:0042220 response to cocaine IEA
 biological_processGO:0042493 response to drug IEA
 biological_processGO:0045666 positive regulation of neuron differentiation IEA
 biological_processGO:0045814 negative regulation of gene expression, epigenetic TAS
 biological_processGO:0045892 negative regulation of transcription, DNA-templated IEA
 biological_processGO:0051571 positive regulation of histone H3-K4 methylation IMP
 biological_processGO:0051573 negative regulation of histone H3-K9 methylation IMP
 biological_processGO:0071455 cellular response to hyperoxia IEA
 biological_processGO:0071549 cellular response to dexamethasone stimulus IEA
 biological_processGO:0090116 C-5 methylation of cytosine IEA
 cellular_componentGO:0005634 nucleus TAS
 cellular_componentGO:0005654 nucleoplasm TAS
 cellular_componentGO:0005737 cytoplasm IEA
 cellular_componentGO:0043231 intracellular membrane-bounded organelle IDA
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003682 chromatin binding IEA
 molecular_functionGO:0003714 transcription corepressor activity IMP
 molecular_functionGO:0003886 DNA (cytosine-5-)-methyltransferase activity IDA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0008168 methyltransferase activity IEA
 molecular_functionGO:0009008 DNA-methyltransferase activity TAS
 molecular_functionGO:0016740 transferase activity IEA
 molecular_functionGO:0042826 histone deacetylase binding IEA
 molecular_functionGO:0046872 metal ion binding IEA


Pathways (from Reactome)
Pathway description
PRC2 methylates histones and DNA
NoRC negatively regulates rRNA expression
SUMOylation of DNA methylation proteins
DNA methylation


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:0000158 Macroglossia "Increased length and width of the tongue." [pmid:19125428]
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 HP:0000246 Sinusitis 
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 HP:0000256 Macrocephaly "The presence of an abnormally large `skull` (FMA:46565)." [HPO:probinson]
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 HP:0000272 Malar hypoplasia "Underdeveloped midface region." [HPO:curators]
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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:0000369 Low-set ears "Low-set ears are defined to be set below an arbitrary line drawn between the lateral canthus of the eye and the occipital protruberance." [HPO:curators]
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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:0001249 Mental retardation 
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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:0001334 Communicating hydrocephalus 
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 HP:0001508 Failure to thrive 
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 HP:0001537 Umbilical hernia "Protrusion of abdominal contents through a defect in the abdominal wall musculature around the umbilicus. Skin and subcutaneous tissue overlie the defect." [HPO:curators]
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 HP:0001874 Abnormality of neutrophil 
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 HP:0001888 Lymphopenia 
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 HP:0001903 Anemia 
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 HP:0002014 Diarrhea 
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 HP:0002024 Malabsorption 
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 HP:0002090 Pneumonia 
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 HP:0002110 Bronchiectasis 
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 HP:0002205 Recurrent respiratory infections 
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 HP:0002721 Immunodeficiency 
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 HP:0003196 Nasal hypoplasia "Underdevelopment of the `nose` (FMA:46472)." [HPO:probinson]
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 HP:0003220 Tendency to chromosomal breakage "A type of chromosomal aberration characterized by an increased susceptibility to chromosomal breakage induced by treatment of cultured lymphocytes with agents such as chemical mutagens, irradiation, and alkylating agents." [HPO:curators]
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 HP:0004313 Reduced immunoglobulin levels 
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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:0004469 Chronic bronchitis 
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 HP:0005280 Depressed nasal root and bridge 
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 HP:0005374 Cellular immunodeficiency 
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 HP:0005403 Reduced number of T cells 
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 HP:0010808 Protruding tongue "Tongue extending beyond the alveolar ridges or teeth at rest." [pmid:19125428]
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 HP:0012368 Flat face "Absence of concavity or convexity of the face when viewed in profile." [pmid:19125436]
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000116030 SUMO1 / P63165 / small ubiquitin-like modifier 1  / reaction / complex
 ENSG00000088305 DNMT3B / Q9UBC3 / DNA methyltransferase 3 beta  / complex
 ENSG00000103275 UBE2I / P63279 / ubiquitin conjugating enzyme E2 I  / reaction
 ENSG00000142182 DNMT3L / Q9UJW3 / DNA methyltransferase 3 like  / complex
 ENSG00000132475 H3F3B / P84243 / H3 histone family member 3B  / reaction / complex
 ENSG00000074266 EED / O75530 / embryonic ectoderm development  / reaction / complex
 ENSG00000178691 SUZ12 / Q15022 / SUZ12 polycomb repressive complex 2 subunit  / reaction / complex
 ENSG00000106462 EZH2 / Q15910 / enhancer of zeste 2 polycomb repressive complex 2 subunit  / complex / reaction
 ENSG00000102054 RBBP7 / Q16576 / RB binding protein 7, chromatin remodeling factor  / complex / reaction
 ENSG00000183598 Q71DI3 / HIST2H3D / histone cluster 2 H3 family member d  / reaction / complex
 ENSG00000162521 RBBP4 / Q09028 / RB binding protein 4, chromatin remodeling factor  / complex / reaction
 ENSG00000276180 P62805 / HIST1H4I / histone cluster 1 H4 family member i  / reaction / complex
 ENSG00000275714 P68431 / HIST1H3A / histone cluster 1 H3 family member a  / reaction / complex






 

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