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

Gene ID: 54650, updated on 30-Apr-2024

Summary

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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 muscle organ development and negative regulation of transcription, DNA-templated. Predicted to act upstream of or within cell differentiation and chromatin organization. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including genitourinary system; intestine; liver; lung; and thymus. Orthologous to human SFMBT1 (Scm like with four mbt domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 3.7), placenta adult (RPKM 2.4) and 24 other tissues See more
Orthologs
human all
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Genomic context

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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

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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. 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 (23) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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 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
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within 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 muscle organ development ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in spermatogenesis TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
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
  

General protein information

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Preferred Names
scm-like with four MBT domains protein 1
Names
Scm-related gene containing four mbt domains 1

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_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

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