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    smyd2a SET and MYND domain containing 2a [ Danio rerio (zebrafish) ]

    Gene ID: 541423, updated on 18-Sep-2024

    Summary

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    Official Symbol
    smyd2aprovided by ZNC
    Official Full Name
    SET and MYND domain containing 2aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050320-126
    See related
    Ensembl:ENSDARG00000055151 AllianceGenome:ZFIN:ZDB-GENE-050320-126
    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
    smyd2; im:7146196; wu:fc02f02; zgc:110553
    Summary
    Predicted to enable RNA polymerase II complex binding activity and histone methyltransferase activity (H3-K36 specific). Acts upstream of or within several processes, including caudal fin development; heart contraction; and regulation of sarcomere organization. Predicted to be located in cytosol. Predicted to be active in nucleus. Is expressed in heart primordium; muscle cell; and somite. Orthologous to human SMYD2 (SET and MYND domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See smyd2a in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (32745763..32779439, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (32793252..32826928, complement)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene potassium channel, subfamily K, member 2a Neighboring gene uncharacterized LOC101884596 Neighboring gene centromere protein F Neighboring gene prospero homeobox 1a Neighboring gene uncharacterized LOC137488119 Neighboring gene uncharacterized LOC103909051 Neighboring gene sorting nexin 9a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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

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    Related articles in PubMed

    1. Smyd2 controls cytoplasmic lysine methylation of Hsp90 and myofilament organization. Donlin LT, et al. Genes Dev, 2012 Jan 15. PMID 22241783, Free PMC Article
    2. Proper Activity of Histone H3 Lysine 4 (H3K4) Methyltransferase Is Required for Morphogenesis during Zebrafish Cardiogenesis. Kim JD, et al. Mol Cells, 2015 Jun. PMID 25997738, Free PMC Article
    3. Lysine methyltransferase Smyd2 regulates Hsp90-mediated protection of the sarcomeric titin springs and cardiac function. Voelkel T, et al. Biochim Biophys Acta, 2013 Apr. PMID 23047121
    4. SMYD2 is induced during cell differentiation and participates in early development. Sesé B, et al. Int J Dev Biol, 2013. PMID 23873367
    5. Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes. Sun XJ, et al. PLoS One, 2008 Jan 30. PMID 18231586, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA polymerase II complex binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K36 methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K4 trimethyltransferase 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 protein-lysine N-methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within caudal fin development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within heart contraction IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within heart contraction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within heart development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within heart development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of cell population proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in peptidyl-lysine dimethylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in peptidyl-lysine monomethylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of DNA damage response, signal transduction by p53 class mediator ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within regulation of sarcomere organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal muscle tissue development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    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

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    Preferred Names
    N-lysine methyltransferase SMYD2-A
    Names
    SET and MYND domain containing 2
    SET and MYND domain-containing protein 2A
    histone methyltransferase SMYD2-A
    NP_001013568.1
    XP_068070504.1

    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_001013550.1 → NP_001013568.1  N-lysine methyltransferase SMYD2-A

      See identical proteins and their annotated locations for NP_001013568.1

      Status: PROVISIONAL

      Source sequence(s)
      BC091465
      UniProtKB/Swiss-Prot
      Q5BJI7
      Related
      ENSDARP00000071926.5, ENSDART00000077459.6
      Conserved Domains (3) summary
      pfam00856
      Location:204 → 240
      SET; SET domain
      pfam01753
      Location:52 → 90
      zf-MYND; MYND finger
      pfam13424
      Location:339 → 412
      TPR_12; Tetratricopeptide repeat

    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. NC_007128.7 Reference GRCz11 Primary Assembly

      Range
      32745763..32779439 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068214403.1 → XP_068070504.1  N-lysine methyltransferase SMYD2-A isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BJI7.1 GenPept UniProtKB/Swiss-Prot:Q5BJI7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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