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Smyd1 SET and MYND domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 297333, updated on 2-Nov-2024

Summary

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Official Symbol
Smyd1provided by RGD
Official Full Name
SET and MYND domain containing 1provided by RGD
Primary source
RGD:1305105
See related
EnsemblRapid:ENSRNOG00000006776 AllianceGenome:RGD:1305105
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable transcription corepressor activity. Predicted to be involved in positive regulation of myoblast differentiation and positive regulation of myotube differentiation. Predicted to act upstream of or within several processes, including chromatin remodeling; negative regulation of DNA-templated transcription; and skeletal muscle cell differentiation. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human SMYD1 (SET and MYND domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Muscle (RPKM 734.3) and Heart (RPKM 704.2) See more
Orthologs
human mouse all
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Genomic context

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See Smyd1 in Genome Data Viewer
Location:
4q32
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (104757281..104811307, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (103195330..103252989, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (99071122..99125143, complement)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene threonine synthase-like 2 Neighboring gene fatty acid binding protein 1 Neighboring gene low molecular weight phosphotyrosine protein phosphatase-like Neighboring gene transfer RNA alanine (anticodon AGC) Neighboring gene lysine-rich coiled-coil 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Role of Muscle-Specific Histone Methyltransferase (Smyd1) in Exercise-Induced Cardioprotection against Pathological Remodeling after Myocardial Infarction. Liang Q, et al. Int J Mol Sci, 2020 Sep 23. PMID 32977624, Free PMC Article
  2. The chromatin-binding protein Smyd1 restricts adult mammalian heart growth. Franklin S, et al. Am J Physiol Heart Circ Physiol, 2016 Nov 1. PMID 27663768, Free PMC Article
  3. SMYD1, the myogenic activator, is a direct target of serum response factor and myogenin. Li D, et al. Nucleic Acids Res, 2009 Nov. PMID 19783823, Free PMC Article
  4. Molecular mechanisms of ventricular hypoplasia. Srivastava D, et al. Cold Spring Harb Symp Quant Biol, 2002. PMID 12858532
  5. Bop encodes a muscle-restricted protein containing MYND and SET domains and is essential for cardiac differentiation and morphogenesis. Gottlieb PD, et al. Nat Genet, 2002 May. PMID 11923873

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Role of Muscle-Specific Histone Methyltransferase (Smyd1) in Exercise-Induced Cardioprotection against Pathological Remodeling after Myocardial Infarction.
    Title: Role of Muscle-Specific Histone Methyltransferase (Smyd1) in Exercise-Induced Cardioprotection against Pathological Remodeling after Myocardial Infarction.
  2. Smyd1 is responsible for restricting growth in the adult heart, with its absence leading to cellular hypertrophy, organ remodeling, and fulminate heart failure. Molecular studies reveal Smyd1 to be a muscle-specific regulator of gene expression and indicate that Smyd1 modulates expression of gene isoforms whose expression is associated with cardiac pathology. Activation of Smyd1 can prevent pathological cell growth.
    Title: The chromatin-binding protein Smyd1 restricts adult mammalian heart growth.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables histone H3K4 methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within chromatin remodeling ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within heart development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of myoblast differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of myotube differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within skeletal muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm 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 SMYD1
Names
SET and MYND domain-containing protein 1
NP_001100065.1
XP_006236694.1
XP_017448024.1
XP_038963241.1
XP_063141845.1
XP_063141846.1

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_001106595.1 → NP_001100065.1  histone-lysine N-methyltransferase SMYD1

    See identical proteins and their annotated locations for NP_001100065.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473957
    UniProtKB/TrEMBL
    A0A8I6AQZ0, A6IA68, D4A3D2
    Related
    ENSRNOP00000009184.5, ENSRNOT00000009184.7
    Conserved Domains (2) summary
    smart00317
    Location:194 → 257
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    pfam01753
    Location:52 → 90
    zf-MYND; MYND finger

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_086022.1 Reference GRCr8

    Range
    104757281..104811307 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063285776.1 → XP_063141846.1  histone-lysine N-methyltransferase SMYD1 isoform X5

  2. XM_039107313.2 → XP_038963241.1  histone-lysine N-methyltransferase SMYD1 isoform X4

    UniProtKB/TrEMBL
    A0A8I5YCG5, A0A8I6AQZ0
    Conserved Domains (1) summary
    cd10526
    Location:7 → 222
    SET_SMYD1; SET domain (including post-SET domain) found in SET and MYND domain-containing protein 1 (SMYD1) and similar proteins

  3. XM_006236632.5 → XP_006236694.1  histone-lysine N-methyltransferase SMYD1 isoform X1

    See identical proteins and their annotated locations for XP_006236694.1

    UniProtKB/TrEMBL
    A0A8I6AKQ9, A0A8I6AQZ0, A6IA67
    Conserved Domains (2) summary
    smart00317
    Location:194 → 244
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    pfam01753
    Location:52 → 90
    zf-MYND; MYND finger

  4. XM_063285775.1 → XP_063141845.1  histone-lysine N-methyltransferase SMYD1 isoform X3

    UniProtKB/TrEMBL
    A0A8I6A681

  5. XM_017592535.3 → XP_017448024.1  histone-lysine N-methyltransferase SMYD1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6AQZ0
    Related
    ENSRNOP00000086450.2, ENSRNOT00000119454.2
Nucleotide Protein Strain
Heading Accession and Version

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