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    smyd1a SET and MYND domain containing 1a [ Danio rerio (zebrafish) ]

    Gene ID: 321245, updated on 9-Dec-2024

    Summary

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    Official Symbol
    smyd1aprovided by ZNC
    Official Full Name
    SET and MYND domain containing 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9825
    See related
    Ensembl:ENSDARG00000009280 AllianceGenome:ZFIN:ZDB-GENE-030131-9825
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    smyd1; sb:cb405; zgc:77936; wu:fc09a05
    Summary
    Predicted to enable histone H3K4 trimethyltransferase activity and metal ion binding activity. Acts upstream of or within striated muscle cell development and thigmotaxis. Located in M band. Is expressed in fin; heart; musculature system; and somite. Orthologous to human SMYD1 (SET and MYND domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Annotation category: suggests misassembly
    Orthologs
    all
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    Genomic context

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    See smyd1a in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (72111189..72125515, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (71326683..71341009, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene oxytocin Neighboring gene threonine synthase-like 2 Neighboring gene fatty acid binding protein 1a, liver Neighboring gene sepiapterin reductase a Neighboring gene exosome component 2

    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
    • 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. Expression and functional characterization of Smyd1a in myofibril organization of skeletal muscles. Gao J, et al. PLoS One, 2014. PMID 24466251, Free PMC Article
    2. Defective sarcomere assembly in smyd1a and smyd1b zebrafish mutants. Cai M, et al. FASEB J, 2019 May. PMID 30817176, Free PMC Article
    3. Loss of zebrafish Smyd1a interferes with myofibrillar integrity without triggering the misfolded myosin response. Paone C, et al. Biochem Biophys Res Commun, 2018 Feb 5. PMID 29331378
    4. Smyd1 is essential for myosin expression and sarcomere organization in craniofacial, extraocular, and cardiac muscles. Jiao S, et al. J Genet Genomics, 2021 Mar 20. PMID 33958316, Free PMC Article
    5. Smyd1b is required for skeletal and cardiac muscle function in zebrafish. Li H, et al. Mol Biol Cell, 2013 Nov. PMID 24068325, Free PMC Article

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables histone H3K4 trimethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within sarcomere organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within sarcomere organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal muscle fiber development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal muscle myosin thick filament assembly IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal muscle thin filament assembly IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal myofibril assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within thigmotaxis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in M band IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone-lysine N-methyltransferase SMYD1a
    NP_991103.2

    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_205540.2 → NP_991103.2  histone-lysine N-methyltransferase SMYD1a

      Status: VALIDATED

      Source sequence(s)
      CABZ01087675, CU929062, EH601391
      UniProtKB/TrEMBL
      A0A8M1PGA4
      Related
      ENSDARP00000027046.8, ENSDART00000027811.10
      Conserved Domains (2) summary
      pfam00856
      Location:203 → 252
      SET; SET domain
      pfam01753
      Location:52 → 90
      zf-MYND; MYND finger

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      72111189..72125515 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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