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Smyd3 SET and MYND domain containing 3 [ Mus musculus (house mouse) ]

Gene ID: 69726, updated on 12-Aug-2018

Summary

Official Symbol
Smyd3provided by MGI
Official Full Name
SET and MYND domain containing 3provided by MGI
Primary source
MGI:MGI:1916976
See related
Ensembl:ENSMUSG00000055067 Vega:OTTMUSG00000017093
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
Zmynd1; 2410008A19Rik
Expression
Ubiquitous expression in CNS E18 (RPKM 2.4), cerebellum adult (RPKM 2.2) and 28 other tissues See more
Orthologs

Genomic context

See Smyd3 in Genome Data Viewer
Location:
1 H4; 1 83.48 cM
Exon count:
18
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 1 NC_000067.6 (178955031..179518053, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 1 NC_000067.5 (180885162..181448134, complement)

Chromosome 1 - NC_000067.6Genomic Context describing neighboring genes Neighboring gene kinesin family member 26B Neighboring gene coiled-coil domain-containing protein 121-like Neighboring gene predicted gene, 46249 Neighboring gene predicted gene, 46250 Neighboring gene predicted gene, 31349 Neighboring gene ribosomal protein L29 pseudogene Neighboring gene transcription factor B2, mitochondrial

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 FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
RNA polymerase II complex binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II proximal promoter sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
histone-lysine N-methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
histone-lysine N-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cellular response to dexamethasone stimulus IDA
Inferred from Direct Assay
more info
PubMed 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
establishment of protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
histone lysine methylation IEA
Inferred from Electronic Annotation
more info
 
methylation IEA
Inferred from Electronic Annotation
more info
 
myotube cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of protein kinase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
nucleosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of peptidyl-serine phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
histone-lysine N-methyltransferase SMYD3
Names
SET and MYND domain-containing protein 3
zinc finger MYND domain-containing protein 1
zinc finger, MYND domain containing 1
NP_081464.1
XP_006497045.1
XP_011237166.1
XP_011237167.1
XP_017167700.1
XP_017167702.1

NCBI Reference Sequences (RefSeq)

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_027188.4NP_081464.1  histone-lysine N-methyltransferase SMYD3

    See identical proteins and their annotated locations for NP_081464.1

    Status: VALIDATED

    Source sequence(s)
    AC117756, AC120870, AC130279, AC138225
    Consensus CDS
    CCDS15560.1
    UniProtKB/Swiss-Prot
    Q9CWR2
    Related
    ENSMUSP00000117410.1, OTTMUSP00000018573, ENSMUST00000128302.7
    Conserved Domains (2) summary
    pfam00856
    Location:201239
    SET; SET domain
    pfam01753
    Location:4987
    zf-MYND; MYND finger

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000067.6 Reference GRCm38.p4 C57BL/6J

    Range
    178955031..179518053 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017312213.1XP_017167702.1  histone-lysine N-methyltransferase SMYD3 isoform X3

    UniProtKB/Swiss-Prot
    Q9CWR2
    Conserved Domains (1) summary
    pfam00856
    Location:1250
    SET; SET domain
  2. XM_006496982.3XP_006497045.1  histone-lysine N-methyltransferase SMYD3 isoform X3

    See identical proteins and their annotated locations for XP_006497045.1

    UniProtKB/Swiss-Prot
    Q9CWR2
    Conserved Domains (1) summary
    pfam00856
    Location:1250
    SET; SET domain
  3. XM_017312211.1XP_017167700.1  histone-lysine N-methyltransferase SMYD3 isoform X3

    UniProtKB/Swiss-Prot
    Q9CWR2
    Conserved Domains (1) summary
    pfam00856
    Location:1250
    SET; SET domain
  4. XM_011238865.2XP_011237167.1  histone-lysine N-methyltransferase SMYD3 isoform X2

    Conserved Domains (1) summary
    pfam00856
    Location:3371
    SET; SET domain
  5. XM_011238864.2XP_011237166.1  histone-lysine N-methyltransferase SMYD3 isoform X1

    Conserved Domains (2) summary
    pfam00856
    Location:201239
    SET; SET domain
    pfam01753
    Location:4987
    zf-MYND; MYND finger
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