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    Suv39h1 suppressor of variegation 3-9 1 [ Mus musculus (house mouse) ]

    Gene ID: 20937, updated on 4-Jan-2025

    Summary

    Official Symbol
    Suv39h1provided by MGI
    Official Full Name
    suppressor of variegation 3-9 1provided by MGI
    Primary source
    MGI:MGI:1099440
    See related
    Ensembl:ENSMUSG00000039231 AllianceGenome:MGI:1099440
    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
    mIS6; KMT1A; DXHXS7466e; H3-K9-HMTase 1
    Summary
    Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity and histone H3K9me2 methyltransferase activity. Involved in circadian rhythm; negative regulation of DNA-templated transcription; and negative regulation of gene expression, epigenetic. Acts upstream of or within several processes, including blastocyst hatching; determination of adult lifespan; and regulation of bone mineralization. Located in heterochromatin and nucleus. Part of chromatin silencing complex. Is expressed in several structures, including alimentary system; early conceptus; genitourinary system; hemolymphoid system; and nervous system. Orthologous to human SUV39H1 (SUV39H1 histone lysine methyltransferase). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Ubiquitous expression in thymus adult (RPKM 16.1), CNS E11.5 (RPKM 15.8) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Suv39h1 in Genome Data Viewer
    Location:
    X A1.1; X 3.64 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (7927401..7940994, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (8061171..8074760, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene ribosomal protein L22, pseudogene 1 Neighboring gene STARR-seq mESC enhancer starr_46686 Neighboring gene ribosomal protein S29 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E7685 Neighboring gene Wiskott-Aldrich syndrome Neighboring gene STARR-seq mESC enhancer starr_46687 Neighboring gene proteasome (prosome, macropain) subunit, beta type 7 pseudogene Neighboring gene proteasome (prosome, macropain) subunit, beta type 7, pseudogene 2

    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)

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding PubMed 
    enables S-adenosylmethionine-dependent methyltransferase activity  
    enables histone H3K9 methyltransferase activity  
    enables histone H3K9 methyltransferase activity PubMed 
    enables histone H3K9 methyltransferase activity PubMed 
    enables histone H3K9 methyltransferase activity PubMed 
    enables histone H3K9 methyltransferase activity  
    enables histone H3K9 trimethyltransferase activity  
    enables histone H3K9 trimethyltransferase activity  
    enables histone H3K9me2 methyltransferase activity PubMed 
    enables histone H3K9me2 methyltransferase activity PubMed 
    enables histone methyltransferase activity  
    enables protein binding PubMed 
    enables protein methyltransferase activity PubMed 
    enables transcription cis-regulatory region binding PubMed 
    enables zinc ion binding  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response PubMed 
    acts_upstream_of_or_within blastocyst hatching PubMed 
    involved_in cell differentiation  
    involved_in cellular response to glucose starvation  
    acts_upstream_of_or_within cellular response to hypoxia PubMed 
    acts_upstream_of_or_within chromosome organization PubMed 
    involved_in circadian rhythm PubMed 
    acts_upstream_of_or_within determination of adult lifespan PubMed 
    involved_in energy homeostasis  
    involved_in epigenetic programming in the zygotic pronuclei  
    involved_in heterochromatin formation PubMed 
    involved_in methylation  
    involved_in negative regulation of DNA-templated transcription PubMed 
    involved_in negative regulation of DNA-templated transcription  
    involved_in negative regulation of cell cycle  
    involved_in negative regulation of gene expression, epigenetic PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II PubMed 
    involved_in rDNA heterochromatin formation  
    involved_in rRNA processing  
    acts_upstream_of_or_within regulation of DNA repair PubMed 
    acts_upstream_of_or_within regulation of bone mineralization PubMed 
    acts_upstream_of_or_within regulation of cellular senescence PubMed 
    acts_upstream_of_or_within regulation of multicellular organism growth PubMed 
    involved_in regulation of transcription by glucose  
    Component Evidence Code Pubs
    part_of chromatin silencing complex PubMed 
    part_of chromatin silencing complex  
    located_in chromosome, centromeric region  
    part_of eNoSc complex  
    located_in heterochromatin PubMed 
    located_in heterochromatin  
    located_in heterochromatin PubMed 
    located_in nuclear lamina  
    located_in nucleolus  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus PubMed 
    is_active_in nucleus  
    located_in nucleus  
    located_in rDNA heterochromatin  

    General protein information

    Preferred Names
    histone-lysine N-methyltransferase SUV39H1
    Names
    Suv39h histone methyltransferase
    histone H3-K9 methyltransferase 1
    position-effect variegation 3-9 homolog
    su(var)3-9 homolog 1
    suppressor of variegation 3-9 homolog 1
    NP_001277645.1
    NP_001345166.1
    NP_035644.1
    XP_006527637.1
    XP_011245754.1
    XP_030107150.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001290716.3NP_001277645.1  histone-lysine N-methyltransferase SUV39H1 isoform 2

      See identical proteins and their annotated locations for NP_001277645.1

      Status: VALIDATED

      Source sequence(s)
      AL663032
      Consensus CDS
      CCDS72337.1
      UniProtKB/TrEMBL
      A2AC19
      Related
      ENSMUSP00000111300.2, ENSMUST00000115637.8
      Conserved Domains (3) summary
      smart00468
      Location:133228
      PreSET; N-terminal to some SET domains
      smart00317
      Location:244367
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      pfam00385
      Location:4592
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
    2. NM_001358237.2NP_001345166.1  histone-lysine N-methyltransferase SUV39H1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL663032
    3. NM_011514.3NP_035644.1  histone-lysine N-methyltransferase SUV39H1 isoform 1

      See identical proteins and their annotated locations for NP_035644.1

      Status: VALIDATED

      Source sequence(s)
      AL663032
      Consensus CDS
      CCDS40846.1
      UniProtKB/Swiss-Prot
      O54864, Q3TEW2, Q3UT51, Q8C2L3, Q9JLC7, Q9JLP8
      Related
      ENSMUSP00000111301.4, ENSMUST00000115638.10
      Conserved Domains (3) summary
      smart00468
      Location:132227
      PreSET; N-terminal to some SET domains
      smart00317
      Location:243366
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      pfam00385
      Location:4491
      Chromo; Chromo (CHRromatin Organization MOdifier) domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      7927401..7940994 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030251290.1XP_030107150.1  histone-lysine N-methyltransferase SUV39H1 isoform X3

      Conserved Domains (2) summary
      cd18639
      Location:4391
      CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins
      cd10525
      Location:158415
      SET_SUV39H1; SET domain (including pre-SET and post-SET domains) found in suppressor of variegation 3-9 homolog 1 (SUV39H1) and similar proteins
    2. XM_006527574.5XP_006527637.1  histone-lysine N-methyltransferase SUV39H1 isoform X2

      Conserved Domains (2) summary
      cd18639
      Location:4391
      CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins
      cl40432
      Location:158371
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
    3. XM_011247452.4XP_011245754.1  histone-lysine N-methyltransferase SUV39H1 isoform X1

      Conserved Domains (2) summary
      cd18639
      Location:4492
      CD_SUV39H1_like; chromodomain of histone methyltransferase SUV39H1, and similar proteins
      cl40432
      Location:159372
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
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