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Setdb1
Gene Detail
 Symbol
Name
ID
Setdb1
SET domain, bifurcated 1
MGI:1934229
Synonyms ESET, KMT1E, mKIAA0067
Feature Type protein coding gene
Genetic Map
Chromosome 3
40.74 cM, cytoband F2
Detailed Genetic Map ± 1 cM


Mapping data(2)
Sequence Map
Chr3:95323525-95357202 bp, - strand
From VEGA annotation of GRCm38

  33678 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:32157  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

Gene Tree: Setdb1

Human
homologs
Human Homolog SETDB1, SET domain, bifurcated 1
NCBI Gene ID 9869
neXtProt AC  NX_Q15047
Human Synonyms  ESET, H3-K9-HMTase4, KG1T, KMT1E, TDRD21
Human Chr (Location)  1q21; chr1:150926339-150964913 (+)  GRCh38
Mutations,
alleles, and
phenotypes
All mutations/alleles(38) : Gene trapped(33) Targeted(5)
Incidental mutations (data from Mutagenetix , APF )
 
Homozygous inactivation of this locus results in peri-implantation lethality. Inner cell mass growth is impaired in null blastocysts.
 
Interactions
Setdb1 interacts with 155 markers (Mir7-1, Mir7-2, Mir7b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (24 annotations)
Process bone development, chromatin modification, ...
Component chromosome, cytoplasm, ...
Function DNA binding, histone-lysine N-methyltransferase activity, ...
External Resources: FuncBase
Expression
Literature Summary: (13 records)
Data Summary: Results (151)    Tissues (128)    Images (24)
Theiler Stages: 1, 19, 22, 23, 28
Assay TypeResults
Immunohistochemistry 10
RNA in situ 137
Northern blot 2
Western blot 2
cDNA source data(11)
External Resources: Allen Institute   GEO   Expression Atlas
Molecular
reagents
All nucleic(12) cDNA(12)
Microarray probesets(4)
Other database
links
VEGA Gene ModelOTTMUSG00000046460 (Evidence)
Ensembl Gene ModelENSMUSG00000015697 (Evidence)
Entrez Gene84505 (Evidence)
DFCITC1574548, TC1593334, TC1746271
NIA Mouse Gene IndexU024363
EC2.1.1.43
Consensus CDS ProjectCCDS17613.1, CCDS50991.1
International Mouse Knockout Project StatusSetdb1
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000046460 VEGA Gene Model | MGI Sequence Detail 33678 C57BL/6J ±  kb
transcript OTTMUST00000041445 VEGA | MGI Sequence Detail 4658 Not Applicable 
polypeptide OTTMUSP00000018601 VEGA | MGI Sequence Detail 1308 Not Applicable 

For the selected sequences
All sequences(54) RefSeq(6) UniProt(4)
Polymorphisms SNPs within 2kb(171 from dbSNP Build 137)    SNPs within 2kb including multiple locations(211)
Protein-related
information
ResourceIDDescription
InterPro IPR016177 DNA-binding, integrase-type
InterPro IPR025796 Histone-lysine N-methyltransferase SETDB1
InterPro IPR001739 Methyl-CpG DNA binding
InterPro IPR003616 Post-SET domain
InterPro IPR007728 Pre-SET domain
InterPro IPR003606 Pre-SET zinc-binding sub-group
InterPro IPR001214 SET domain
InterPro IPR002999 Tudor domain
Protein Ontology PR:000014724 histone-lysine N-methyltransferase SETDB1
References (Earliest) J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
(Latest) J:211407 Girardot M, et al., PRMT5-mediated histone H4 arginine-3 symmetrical dimethylation marks chromatin at G + C-rich regions of the mouse genome. Nucleic Acids Res. 2014 Jan;42(1):235-48
All references(65)
Other
accession IDs
MGI:2139889

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
09/16/2014
MGI 5.19
The Jackson Laboratory