U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Sfmbt1 Scm-like with four mbt domains 1 [ Mus musculus (house mouse) ]

    Gene ID: 54650, updated on 11-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sfmbt1provided by MGI
    Official Full Name
    Scm-like with four mbt domains 1provided by MGI
    Primary source
    MGI:MGI:1859609
    See related
    Ensembl:ENSMUSG00000006527 AllianceGenome:MGI:1859609
    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
    Smr; Sfmbt; 4930442N21Rik; 9330180L21Rik
    Summary
    Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of DNA-templated transcription and negative regulation of muscle organ development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including brain; genitourinary system; liver; lung; and thymus. Orthologous to human SFMBT1 (Scm like with four mbt domains 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 3.7), placenta adult (RPKM 2.4) and 24 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sfmbt1 in Genome Data Viewer
    Location:
    14 B; 14 18.99 cM
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (30436806..30544678)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (30714849..30822721)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7301 Neighboring gene predicted gene, 53839 Neighboring gene STARR-positive B cell enhancer ABC_E4101 Neighboring gene STARR-positive B cell enhancer ABC_E1892 Neighboring gene RFT1 homolog Neighboring gene STARR-seq mESC enhancer starr_36309 Neighboring gene RIKEN cDNA 1700087M22 gene Neighboring gene transformer 2 beta homolog pseudogene Neighboring gene STIM activating enhancer Neighboring gene musculoskeletal, embryonic nuclear protein 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. SFMBT1 functions with LSD1 to regulate expression of canonical histone genes and chromatin-related factors. Zhang J, et al. Genes Dev, 2013 Apr 1. PMID 23592795, Free PMC Article
    2. Cloning of a novel murine gene Sfmbt, Scm-related gene containing four mbt domains, structurally belonging to the Polycomb group of genes. Usui H, et al. Gene, 2000 May 2. PMID 10806358
    3. Proteolysis of methylated SOX2 protein is regulated by L3MBTL3 and CRL4(DCAF5) ubiquitin ligase. Zhang C, et al. J Biol Chem, 2019 Jan 11. PMID 30442713, Free PMC Article
    4. Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation. Barnes CE, et al. Mol Omics, 2022 Jan 17. PMID 34709266, Free PMC Article
    5. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • DKFZp434L243

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of muscle organ development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of muscle organ development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spermatogenesis TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    scm-like with four MBT domains protein 1
    Names
    Scm-related gene containing four mbt domains 1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001166531.1 → NP_001160003.1  scm-like with four MBT domains protein 1

      See identical proteins and their annotated locations for NP_001160003.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, compared to variant 1. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AB032165, AC154436, AK160573
      Consensus CDS
      CCDS26897.1
      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    2. NM_001166532.1 → NP_001160004.1  scm-like with four MBT domains protein 1

      See identical proteins and their annotated locations for NP_001160004.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AB032165, AC154436, BC036972
      Consensus CDS
      CCDS26897.1
      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Related
      ENSMUSP00000056744.5, ENSMUST00000054230.12
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    3. NM_019460.2 → NP_062333.1  scm-like with four MBT domains protein 1

      See identical proteins and their annotated locations for NP_062333.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) represents use of an alternate promoter and 5' UTR, compared to variant 1. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AB032165, AC154436, BC066188, CJ077633
      Consensus CDS
      CCDS26897.1
      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Related
      ENSMUSP00000107802.2, ENSMUST00000112184.10
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED 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_000080.7 Reference GRCm39 C57BL/6J

      Range
      30436806..30544678
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006519289.5 → XP_006519352.1  scm-like with four MBT domains protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006519352.1

      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    2. XM_036158762.1 → XP_036014655.1  scm-like with four MBT domains protein 1 isoform X3

      Conserved Domains (3) summary
      cd09581
      Location:394 → 478
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:1 → 66
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:114 → 229
      SLED; SLED domain

    3. XM_030247889.2 → XP_030103749.1  scm-like with four MBT domains protein 1 isoform X1

      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Related
      ENSMUSP00000153962.2, ENSMUST00000227303.2
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    4. XM_011245120.3 → XP_011243422.1  scm-like with four MBT domains protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011243422.1

      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    5. XM_006519288.4 → XP_006519351.1  scm-like with four MBT domains protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006519351.1

      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    6. XM_006519287.4 → XP_006519350.1  scm-like with four MBT domains protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006519350.1

      UniProtKB/Swiss-Prot
      Q6NZD3, Q8CFS1, Q9JMD1
      UniProtKB/TrEMBL
      A0A2I3BPX6
      Related
      ENSMUSP00000153861.2, ENSMUST00000228006.2
      Conserved Domains (3) summary
      cd09581
      Location:779 → 863
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:23 → 120
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:499 → 614
      SLED; SLED domain

    7. XM_006519290.1 → XP_006519353.1  scm-like with four MBT domains protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A2I3BPX6
      Conserved Domains (3) summary
      cd09581
      Location:633 → 717
      SAM_Scm-like-4MBT1,2; SAM domain of Scm-like-4MBT1,2 proteins of Polycomb group
      smart00561
      Location:212 → 305
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:353 → 468
      SLED; SLED domain

    RNA

    1. XR_004938416.1 RNA Sequence

    2. XR_004938415.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_175254.2: Suppressed sequence

      Description
      NM_175254.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JMD1.1 GenPept UniProtKB/Swiss-Prot:Q9JMD1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools