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    SETDB1 SET domain bifurcated histone lysine methyltransferase 1 [ Bos taurus (cattle) ]

    Gene ID: 100138100, updated on 8-Mar-2024

    Summary

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    Official Symbol
    SETDB1provided by VGNC
    Official Full Name
    SET domain bifurcated histone lysine methyltransferase 1provided by VGNC
    Primary source
    VGNC:VGNC:34499
    See related
    Ensembl:ENSBTAG00000000098
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Bos taurus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
    Orthologs
    human mouse all
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    Genomic context

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    See SETDB1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2023_09 current ARS-UCD2.0 (GCF_002263795.3) 3 NC_037330.1 (19801935..19834303, complement)

    Chromosome 3 - NC_037330.1Genomic Context describing neighboring genes Neighboring gene prune exopolyphosphatase 1 Neighboring gene MINDY lysine 48 deubiquitinase 1 Neighboring gene annexin A9 Neighboring gene ceramide synthase 2 Neighboring gene transfer RNA glycine (anticodon CCC) Neighboring gene cortexin domain containing 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_037330.1 Chromosome 3 Reference ARS-UCD2.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Histone-lysine N-methyltransferase SETDB1 is required for development of the bovine blastocyst. Golding MC, et al. Theriogenology, 2015 Nov. PMID 26279314, Free PMC Article
    2. Sequence evaluation of four pooled-tissue normalized bovine cDNA libraries and construction of a gene index for cattle. Smith TP, et al. Genome Res, 2001 Apr. PMID 11282978, Free PMC Article
    3. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SETDB1 is essential for the earliest events in lineage specification in the bovine blastocyst.
      Title: Histone-lysine N-methyltransferase SETDB1 is required for development of the bovine blastocyst.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone H3K9 methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in heterochromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of DNA methylation-dependent heterochromatin formation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone-lysine N-methyltransferase SETDB1
    Names
    SET domain bifurcated 1
    NP_001178317.1
    XP_005203886.1
    XP_024839937.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001191388.3 → NP_001178317.1  histone-lysine N-methyltransferase SETDB1

      See identical proteins and their annotated locations for NP_001178317.1

      Status: PROVISIONAL

      Source sequence(s)
      BE809007, DT815786, DV886477, DV888831, DV923001, EE360989, NKLS02000003
      UniProtKB/TrEMBL
      E1BKH5
      Related
      ENSBTAP00000000107.6, ENSBTAT00000000107.6
      Conserved Domains (4) summary
      smart00391
      Location:596 → 671
      MBD; Methyl-CpG binding domain
      smart00468
      Location:678 → 785
      PreSET; N-terminal to some SET domains
      smart00333
      Location:348 → 400
      TUDOR; Tudor domain
      smart00317
      Location:1205 → 1267
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2023_09

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ARS-UCD2.0 Primary Assembly

    Genomic

    1. NC_037330.1 Reference ARS-UCD2.0 Primary Assembly

      Range
      19801935..19834303 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024984169.2 → XP_024839937.1  histone-lysine N-methyltransferase SETDB1 isoform X1

      UniProtKB/TrEMBL
      E1BKH5
      Conserved Domains (4) summary
      smart00391
      Location:596 → 671
      MBD; Methyl-CpG binding domain
      smart00468
      Location:678 → 785
      PreSET; N-terminal to some SET domains
      smart00333
      Location:348 → 400
      TUDOR; Tudor domain
      smart00317
      Location:1205 → 1267
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    2. XM_005203829.5 → XP_005203886.1  histone-lysine N-methyltransferase SETDB1 isoform X2

      Conserved Domains (4) summary
      smart00391
      Location:595 → 670
      MBD; Methyl-CpG binding domain
      smart00468
      Location:677 → 784
      PreSET; N-terminal to some SET domains
      smart00333
      Location:348 → 400
      TUDOR; Tudor domain
      smart00317
      Location:1204 → 1266
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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