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    Setmar SET domain without mariner transposase fusion [ Mus musculus (house mouse) ]

    Gene ID: 74729, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Setmarprovided by MGI
    Official Full Name
    SET domain without mariner transposase fusionprovided by MGI
    Primary source
    MGI:MGI:1921979
    See related
    Ensembl:ENSMUSG00000034639 AllianceGenome:MGI:1921979
    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
    Etet2; 5830404F24Rik
    Summary
    This gene encodes a histone-lysine N-methyltransferase that may be involved in the methylation of histone H3. In anthropoid primates this gene is a fusion gene of a SET histone-lysine N-methyltransferase and a mariner (MAR) family transposase. In all other species this gene contains only the SET domain. [provided by RefSeq, Jan 2013]
    Expression
    Ubiquitous expression in bladder adult (RPKM 2.7), frontal lobe adult (RPKM 1.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Setmar in Genome Data Viewer
    Location:
    6 E1; 6 49.71 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (108042006..108054088)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (108065045..108077127)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene vomeronasal 1 receptor, pseudogene 38 Neighboring gene ARP1 actin-related protein 1 homolog B, centractin beta pseudogene Neighboring gene STARR-seq mESC enhancer starr_16948 Neighboring gene STARR-seq mESC enhancer starr_16949 Neighboring gene STARR-positive B cell enhancer ABC_E9097 Neighboring gene STARR-positive B cell enhancer ABC_E2198 Neighboring gene STARR-positive B cell enhancer ABC_E6463 Neighboring gene sulfatase modifying factor 1 Neighboring gene ribosomal protein L36, pseudogene 12 Neighboring gene STARR-positive B cell enhancer ABC_E6464 Neighboring gene STARR-positive B cell enhancer ABC_E6465 Neighboring gene STARR-positive B cell enhancer ABC_E2199 Neighboring gene predicted gene, 38872

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Study of the interaction among Notch pathway receptors, correlation with stemness, as well as their interaction with CD44, dipeptidyl peptidase-IV, hepatocyte growth factor receptor and the SETMAR transferase, in colon cancer stem cells. Apostolou P, et al. J Recept Signal Transduct Res, 2013 Dec. PMID 23964856
    2. Birth of a chimeric primate gene by capture of the transposase gene from a mobile element. Cordaux R, et al. Proc Natl Acad Sci U S A, 2006 May 23. PMID 16672366, Free PMC Article
    3. Identification and partial characterization of novel genes by differential display of mRNAs in squamous papillomas induced in skin of SENCAR mice. Siddiqui J, et al. Int J Oncol, 1996 Aug. PMID 21541502
    4. The transposase domain protein Metnase/SETMAR suppresses chromosomal translocations. Wray J, et al. Cancer Genet Cytogenet, 2010 Jul 15. PMID 20620605, Free PMC Article
    5. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The suppression of Notch-1 led to increased expression of Oct4 and Sox2, but in decreased gene expression of cMET, Setmar and CD44.
      Title: Study of the interaction among Notch pathway receptors, correlation with stemness, as well as their interaction with CD44, dipeptidyl peptidase-IV, hepatocyte growth factor receptor and the SETMAR transferase, in colon cancer stem cells.
    2. Metnase may have been selected for because it has a function opposing transposases and may thus play a key role in suppressing translocations that underlie oncogenicity.
      Title: The transposase domain protein Metnase/SETMAR suppresses chromosomal translocations.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA topoisomerase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables double-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone H3K36 dimethyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone H3K36 dimethyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K36 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone H3K4 methyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone H3K4 methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K9 methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded DNA endodeoxyribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA double-strand break processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA integration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mitotic DNA integrity checkpoint signaling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of chromosome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nucleic acid metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in replication fork processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    colocalizes_with condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    histone-lysine N-methyltransferase SETMAR
    Names
    SET domain and mariner transposase fusion gene-containing protein homolog
    SET domain without mariner transposase fusion protein
    epidermal tumor expressed transcript 2
    NP_001263285.1
    NP_848478.2

    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_001276356.1 → NP_001263285.1  histone-lysine N-methyltransferase SETMAR isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate internal exon, compared to variant 1. This difference results in a distinct 5' UTR and causes translation initiation at an alternate start codon, compared to variant 1. The encoded protein (isoform 2) is shorter and has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC153916
      Conserved Domains (1) summary
      cd10544
      Location:19 → 269
      SET_SETMAR; SET domain (including pre-SET and post-SET domains) found in SET domain and mariner transposase fusion protein (SETMAR) and similar proteins

    2. NM_178391.4 → NP_848478.2  histone-lysine N-methyltransferase SETMAR isoform 1

      See identical proteins and their annotated locations for NP_848478.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC153916, AK017895
      Consensus CDS
      CCDS51867.1
      UniProtKB/Swiss-Prot
      E9QLD6, Q80UJ9
      Related
      ENSMUSP00000048225.6, ENSMUST00000049246.7
      Conserved Domains (2) summary
      smart00317
      Location:142 → 269
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      pfam05033
      Location:29 → 132
      Pre-SET; Pre-SET motif

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      108042006..108054088
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80UJ9.2 GenPept UniProtKB/Swiss-Prot:Q80UJ9

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