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Smyd5 SET and MYND domain containing 5 [ Mus musculus (house mouse) ]

Gene ID: 232187, updated on 8-Dec-2022

Summary

Official Symbol
Smyd5provided by MGI
Official Full Name
SET and MYND domain containing 5provided by MGI
Primary source
MGI:MGI:108048
See related
Ensembl:ENSMUSG00000033706 AllianceGenome:MGI:108048
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rrg1; Rai15; NN8-4AG
Summary
Enables histone methyltransferase activity (H4-K20 specific). Involved in several processes, including histone H4-K20 trimethylation; negative regulation of gene expression, epigenetic; and negative regulation of transposition. Is expressed in several structures, including alimentary system; brain; heart; skeletal musculature; and spleen. Orthologous to human SMYD5 (SMYD family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 20.8), limb E14.5 (RPKM 19.3) and 28 other tissues See more
Orthologs
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Genomic context

See Smyd5 in Genome Data Viewer
Location:
6 C3; 6 37.44 cM
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (85408958..85423411)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (85431976..85446429)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4933423K11 gene Neighboring gene notochord homeobox Neighboring gene protease-associated domain containing 1 Neighboring gene chaperonin containing Tcp1, subunit 7 (eta) Neighboring gene F-box protein 41

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

General gene information

Markers

Homology

Clone Names

  • MGC29044

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables histone H4K20 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables histone H4K20 methyltransferase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables histone H4K20 trimethyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone lysine N-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 protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
 

General protein information

Preferred Names
histone-lysine N-trimethyltransferase SMYD5
Names
SET and MYND domain-containing protein 5
[histone H4]-lysine20 N-trimethyltransferase SMYD5
retinoic acid induced 15
retinoic acid responsive gene 1
retinoic acid-induced protein 15
NP_659167.2

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_144918.2NP_659167.2  histone-lysine N-trimethyltransferase SMYD5

    See identical proteins and their annotated locations for NP_659167.2

    Status: VALIDATED

    Source sequence(s)
    AK162926, BE951851, BU847995
    Consensus CDS
    CCDS51827.1
    UniProtKB/Swiss-Prot
    Q3TYX3, Q91YL6
    Related
    ENSMUSP00000048537.8, ENSMUST00000045693.8
    Conserved Domains (1) summary
    smart00317
    Location:297350
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    85408958..85423411
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)