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Smyd4 SET and MYND domain containing 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 287525, updated on 17-Aug-2024

Summary

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Official Symbol
Smyd4provided by RGD
Official Full Name
SET and MYND domain containing 4provided by RGD
Primary source
RGD:1307369
See related
EnsemblRapid:ENSRNOG00000026783 AllianceGenome:RGD:1307369
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 methyltransferase activity. Predicted to be involved in heart development. Predicted to be located in cytoplasm and nucleus. Orthologous to human SMYD4 (SET and MYND domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 42.5), Adrenal (RPKM 34.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Smyd4 in Genome Data Viewer
Location:
10q24
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (60698376..60744693)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (60200067..60246387)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (62191669..62237939)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene reticulon 4 receptor-like 1 Neighboring gene ATP synthase subunit g, mitochondrial-like Neighboring gene replication protein A1 Neighboring gene F-box protein 5, pseudogene 1 Neighboring gene ribosomal protein L37, pseudogene 4 Neighboring gene serpin family F member 1 Neighboring gene serpin family F member 2

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. 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

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables histone deacetylase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in heart development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in heart development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
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
SET and MYND domain-containing protein 4
NP_001099280.1
XP_063124747.1

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_001105810.1 → NP_001099280.1  SET and MYND domain-containing protein 4

    See identical proteins and their annotated locations for NP_001099280.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A6HGQ1, D4AEC7
    Related
    ENSRNOP00000029945.4, ENSRNOT00000029866.7
    Conserved Domains (5) summary
    sd00006
    Location:68 → 96
    TPR; TPR repeat [structural motif]
    pfam00856
    Location:526 → 572
    SET; SET domain
    pfam01753
    Location:296 → 335
    zf-MYND; MYND finger
    pfam13414
    Location:68 → 132
    TPR_11; TPR repeat
    pfam13424
    Location:692 → 748
    TPR_12; Tetratricopeptide repeat

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_086028.1 Reference GRCr8

    Range
    60698376..60744693
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063268677.1 → XP_063124747.1  SET and MYND domain-containing protein 4 isoform X1

    UniProtKB/TrEMBL
    A6HGQ1, D4AEC7

RNA

  1. XR_005489742.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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