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    Setdb2 SET domain bifurcated histone lysine methyltransferase 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100361710, updated on 17-Aug-2024

    Summary

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    Symbol
    Setdb2provided by RGD
    Full Name
    SET domain bifurcated histone lysine methyltransferase 2provided by RGD
    Primary source
    RGD:2319564
    See related
    EnsemblRapid:ENSRNOG00000021680 AllianceGenome:RGD:2319564
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable histone methyltransferase activity (H3-K9 specific). Predicted to be involved in several processes, including heterochromatin organization; histone H3-K9 methylation; and regulation of gene expression. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Orthologous to human SETDB2 (SET domain bifurcated histone lysine methyltransferase 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    15p12
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (37731029..37782790, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (33553657..33606586, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (38699135..39745035, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene PHD finger protein 11A Neighboring gene PHD finger protein 11-like Neighboring gene calcium binding protein 39-like Neighboring gene U2 spliceosomal RNA Neighboring gene uncharacterized LOC120097001 Neighboring gene cytidine and dCMP deaminase domain containing 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. CLLD8/KMT1F is a lysine methyltransferase that is important for chromosome segregation. Falandry C, et al. J Biol Chem, 2010 Jun 25. PMID 20404330, Free PMC Article
    2. The novel testicular enrichment protein Cfap58 is required for Notch-associated ciliogenesis. Li ZZ, et al. Biosci Rep, 2020 Jan 31. PMID 31904090, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9 methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone H3K9 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heterochromatin organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of DNA methylation-dependent heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    histone-lysine N-methyltransferase SETDB2
    Names
    PHD finger protein 11
    SET domain, bifurcated 2
    XP_038949803.1
    XP_038949804.1
    XP_038949805.1
    XP_038949807.1
    XP_038949808.1
    XP_038949809.1
    XP_038949811.1
    XP_038949812.1
    XP_038949813.1
    XP_038949814.1
    XP_038949815.1
    XP_038949816.1
    XP_063130938.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086033.1 Reference GRCr8

      Range
      37731029..37782790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039093876.2 → XP_038949804.1  histone-lysine N-methyltransferase SETDB2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GAC4, M0R6H5
      Related
      ENSRNOP00000084411.1, ENSRNOT00000094078.2
      Conserved Domains (4) summary
      cd01395
      Location:152 → 212
      HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
      cl40432
      Location:210 → 687
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      pfam00856
      Location:365 → 425
      SET; SET domain
      cl22851
      Location:700 → 813
      PHD_SF; PHD finger superfamily

    2. XM_039093875.2 → XP_038949803.1  histone-lysine N-methyltransferase SETDB2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GAC4, M0R6H5
      Conserved Domains (4) summary
      cd01395
      Location:152 → 212
      HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
      cl40432
      Location:210 → 687
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      pfam00856
      Location:365 → 425
      SET; SET domain
      cl22851
      Location:700 → 813
      PHD_SF; PHD finger superfamily

    3. XM_039093877.2 → XP_038949805.1  histone-lysine N-methyltransferase SETDB2 isoform X2

      Conserved Domains (4) summary
      cd01395
      Location:100 → 160
      HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
      cl40432
      Location:158 → 635
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      pfam00856
      Location:313 → 373
      SET; SET domain
      cl22851
      Location:648 → 761
      PHD_SF; PHD finger superfamily

    4. XM_039093879.2 → XP_038949807.1  histone-lysine N-methyltransferase SETDB2 isoform X3

      Conserved Domains (4) summary
      cl40432
      Location:21 → 498
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      pfam00856
      Location:176 → 236
      SET; SET domain
      cl00110
      Location:1 → 23
      MBD; MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to ...
      cl22851
      Location:511 → 624
      PHD_SF; PHD finger superfamily

    5. XM_063274868.1 → XP_063130938.1  histone-lysine N-methyltransferase SETDB2 isoform X4

    6. XM_039093880.2 → XP_038949808.1  histone-lysine N-methyltransferase SETDB2 isoform X4

      Conserved Domains (3) summary
      cl40432
      Location:1 → 346
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      pfam00856
      Location:24 → 84
      SET; SET domain
      cl22851
      Location:359 → 472
      PHD_SF; PHD finger superfamily

    7. XM_039093885.2 → XP_038949813.1  histone-lysine N-methyltransferase SETDB2 isoform X8

      Conserved Domains (2) summary
      cl40432
      Location:105 → 182
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      cl22851
      Location:195 → 308
      PHD_SF; PHD finger superfamily

    8. XM_039093883.2 → XP_038949811.1  histone-lysine N-methyltransferase SETDB2 isoform X6

      Conserved Domains (3) summary
      COG2940
      Location:43 → 208
      SET; SET domain-containing protein (function unknown) [General function prediction only]
      cl40432
      Location:145 → 222
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
      cl22851
      Location:235 → 348
      PHD_SF; PHD finger superfamily

    9. XM_039093888.2 → XP_038949816.1  histone-lysine N-methyltransferase SETDB2 isoform X10

      Conserved Domains (1) summary
      cl22851
      Location:27 → 140
      PHD_SF; PHD finger superfamily

    10. XM_039093887.2 → XP_038949815.1  histone-lysine N-methyltransferase SETDB2 isoform X10

      Conserved Domains (1) summary
      cl22851
      Location:27 → 140
      PHD_SF; PHD finger superfamily

    11. XM_039093886.2 → XP_038949814.1  histone-lysine N-methyltransferase SETDB2 isoform X9

      UniProtKB/TrEMBL
      F1LQ59
      Conserved Domains (1) summary
      cl22851
      Location:76 → 189
      PHD_SF; PHD finger superfamily

    12. XM_039093881.2 → XP_038949809.1  histone-lysine N-methyltransferase SETDB2 isoform X5

      UniProtKB/TrEMBL
      D3ZDZ9
      Related
      ENSRNOP00000036240.7, ENSRNOT00000036781.9
      Conserved Domains (2) summary
      cd01395
      Location:152 → 212
      HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
      cl40432
      Location:210 → 420
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    13. XM_039093884.2 → XP_038949812.1  histone-lysine N-methyltransferase SETDB2 isoform X7

      Conserved Domains (2) summary
      cd01395
      Location:152 → 212
      HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
      cl40432
      Location:210 → 420
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    RNA

    1. XR_005493987.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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