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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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