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    setdb2 SET domain bifurcated histone lysine methyltransferase 2 [ Danio rerio (zebrafish) ]

    Gene ID: 335153, updated on 4-Jan-2025

    Summary

    Official Symbol
    setdb2provided by ZNC
    Official Full Name
    SET domain bifurcated histone lysine methyltransferase 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7093
    See related
    AllianceGenome:ZFIN:ZDB-GENE-030131-7093
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:77298; wu:fk80d09
    Summary
    Enables histone H3K9 methyltransferase activity. Involved in heart looping; left/right axis specification; and negative regulation of DNA-templated transcription. Acts upstream of or within convergent extension involved in gastrulation and determination of left/right symmetry. Predicted to be located in chromosome. Predicted to be active in nucleus. Orthologous to human SETDB2 (SET domain bifurcated histone lysine methyltransferase 2). [provided by Alliance of Genome Resources, Jan 2025]
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
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    Genomic context

    See setdb2 in Genome Data Viewer
    Location:
    chromosome: Un
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) Unplaced Scaffold NW_003334027.1 (8472..12634)
    105 previous assembly GRCz10 (GCF_000002035.5) Unplaced Scaffold NW_003334027.1 (8472..12634)

    NW_003334027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101885776 Neighboring gene H2A histone family member 1a like Neighboring gene cellular repressor of E1A-stimulated genes 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    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 IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables histone H3K9 monomethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3K9me2 methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromosome segregation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within convergent extension involved in gastrulation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within convergent extension involved in gastrulation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within determination of left/right symmetry IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in heart looping IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in heterochromatin organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in left/right axis specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mitotic cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    histone-lysine N-methyltransferase SETDB2
    Names
    SET domain, bifurcated 2
    NP_996941.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_207058.1NP_996941.1  histone-lysine N-methyltransferase SETDB2

      See identical proteins and their annotated locations for NP_996941.1

      Status: PROVISIONAL

      Source sequence(s)
      BC066376
      UniProtKB/Swiss-Prot
      Q06ZW3, Q6NZ23
      Conserved Domains (3) summary
      smart00317
      Location:332535
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      pfam05033
      Location:225324
      Pre-SET; Pre-SET motif
      cl00110
      Location:151205
      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 ...

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NW_003334027.1 Reference GRCz11 Primary Assembly

      Range
      8472..12634
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)