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

    Gene ID: 20937, updated on 9-Dec-2024

    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, Dec 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 16.1), CNS E11.5 (RPKM 15.8) and 28 other tissues See more
    Orthologs
    NEW
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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

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables S-adenosylmethionine-dependent methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone H3K9 methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone H3K9 methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone H3K9 methyltransferase activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    enables histone H3K9 methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables histone H3K9 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone H3K9 trimethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3K9 trimethyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone H3K9me2 methyltransferase activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    enables histone H3K9me2 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    enables histone methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein methyltransferase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables transcription cis-regulatory region binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    acts_upstream_of_or_within blastocyst hatching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to glucose starvation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to hypoxia ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    acts_upstream_of_or_within chromosome organization TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within determination of adult lifespan IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in energy homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in epigenetic programming in the zygotic pronuclei ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in heterochromatin formation TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in methylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in rDNA heterochromatin formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of bone mineralization IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within regulation of cellular senescence IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of multicellular organism growth IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in regulation of transcription by glucose ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of chromatin silencing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of chromatin silencing complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromosome, centromeric region IEA
    Inferred from Electronic Annotation
    more info
     
    part_of eNoSc complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in heterochromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in heterochromatin TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in nuclear lamina IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in rDNA heterochromatin ISO
    Inferred from Sequence Orthology
    more info
     

    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