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    Scmh1 Scm polycomb group homolog 1 [ Mus musculus (house mouse) ]

    Gene ID: 29871, updated on 10-Dec-2024

    Summary

    Official Symbol
    Scmh1provided by MGI
    Official Full Name
    Scm polycomb group homolog 1provided by MGI
    Primary source
    MGI:MGI:1352762
    See related
    Ensembl:ENSMUSG00000000085 AllianceGenome:MGI:1352762
    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
    Scml1; Scml3
    Summary
    Predicted to enable chromatin binding activity and histone binding activity. Acts upstream of or within anterior/posterior pattern specification; chromatin remodeling; and spermatogenesis. Located in chromocenter and male germ cell nucleus. Is expressed in several structures, including branchial arch; genitourinary system; gut; limb; and nervous system. Orthologous to human SCMH1 (Scm polycomb group protein homolog 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 9.0), bladder adult (RPKM 6.2) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Scmh1 in Genome Data Viewer
    Location:
    4 D2.1; 4 56.52 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (120262347..120387397)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (120405150..120530200)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 36499 Neighboring gene predicted gene, 36574 Neighboring gene VISTA enhancer mm145 Neighboring gene STARR-seq mESC enhancer starr_11247 Neighboring gene STARR-seq mESC enhancer starr_11248 Neighboring gene STARR-seq mESC enhancer starr_11249 Neighboring gene schlafen like 1 Neighboring gene cytidine 5'-triphosphate synthase 1

    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)
    • Endonuclease-mediated (2) 
    • Targeted (5)  1 citation

    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 chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in chromocenter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in male germ cell nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    polycomb protein SCMH1
    Names
    sex comb on midleg 1
    sex comb on midleg homolog 1
    sex comb on midleg-like 1
    sex comb on midleg-like 3

    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_001159630.2NP_001153102.1  polycomb protein SCMH1 isoform 2

      See identical proteins and their annotated locations for NP_001153102.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate segment in the 3' coding region, compared to variant 1. The resulting isoform (2) has a longer and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AL611924, AL626767
      Consensus CDS
      CCDS51292.1
      UniProtKB/Swiss-Prot
      B1AS51, Q8K214, Q9JME0
      Related
      ENSMUSP00000101908.2, ENSMUST00000106301.8
      Conserved Domains (4) summary
      cd09578
      Location:591661
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00454
      Location:594661
      SAM; Sterile alpha motif
      smart00561
      Location:31126
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:357465
      DUF3588; Protein of unknown function (DUF3588)
    2. NM_001379184.1NP_001366113.1  polycomb protein SCMH1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
      Conserved Domains (4) summary
      cd09578
      Location:599669
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00561
      Location:39134
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:365473
      SLED; SLED domain
      pfam17208
      Location:278327
      RBR; RNA binding Region
    3. NM_001379185.1NP_001366114.1  polycomb protein SCMH1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
      Consensus CDS
      CCDS18589.1
      Conserved Domains (4) summary
      cd09578
      Location:591661
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00561
      Location:31126
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:357465
      SLED; SLED domain
      pfam17208
      Location:270319
      RBR; RNA binding Region
    4. NM_001379186.1NP_001366115.1  polycomb protein SCMH1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
      Conserved Domains (4) summary
      cd09578
      Location:567637
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00561
      Location:7102
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:333441
      SLED; SLED domain
      pfam17208
      Location:246295
      RBR; RNA binding Region
    5. NM_001404090.1NP_001391019.1  polycomb protein SCMH1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
      UniProtKB/Swiss-Prot
      B1AS51, Q8K214, Q9JME0
    6. NM_001404102.1NP_001391031.1  polycomb protein SCMH1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
    7. NM_001404103.1NP_001391032.1  polycomb protein SCMH1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767
    8. NM_013883.3NP_038911.1  polycomb protein SCMH1 isoform 1

      See identical proteins and their annotated locations for NP_038911.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform (1). Variants 1 and 3 encode the same isoform (1).
      Source sequence(s)
      AL611924, AL626767
      Consensus CDS
      CCDS18589.1
      UniProtKB/Swiss-Prot
      Q8K214
      Related
      ENSMUSP00000000087.7, ENSMUST00000000087.13
      Conserved Domains (4) summary
      cd09578
      Location:591661
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00561
      Location:31126
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:357465
      SLED; SLED domain
      pfam17208
      Location:270319
      RBR; RNA binding Region

    RNA

    1. NR_175812.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL611924, AL626767

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      120262347..120387397
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503149.3XP_006503212.1  polycomb protein SCMH1 isoform X3

      Conserved Domains (4) summary
      smart00561
      Location:39134
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:365473
      SLED; SLED domain
      pfam17208
      Location:278327
      RBR; RNA binding Region
      cl15755
      Location:599636
      SAM_superfamily; SAM (Sterile alpha motif )
    2. XM_017320253.2XP_017175742.1  polycomb protein SCMH1 isoform X1

      UniProtKB/Swiss-Prot
      Q8K214
      Related
      ENSMUSP00000101905.4, ENSMUST00000106298.10
      Conserved Domains (4) summary
      cd09578
      Location:591661
      SAM_Scm; SAM domain of Scm proteins of Polycomb group
      smart00561
      Location:31126
      MBT; Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2
      pfam12140
      Location:357465
      SLED; SLED domain
      pfam17208
      Location:270319
      RBR; RNA binding Region

    RNA

    1. XR_004941919.1 RNA Sequence

    2. XR_003954960.2 RNA Sequence