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    Samd7 sterile alpha motif domain containing 7 [ Mus musculus (house mouse) ]

    Gene ID: 75953, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Samd7provided by MGI
    Official Full Name
    sterile alpha motif domain containing 7provided by MGI
    Primary source
    MGI:MGI:1923203
    See related
    Ensembl:ENSMUSG00000051860 AllianceGenome:MGI:1923203
    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
    4930597A01Rik
    Summary
    Enables DNA-binding transcription repressor activity, RNA polymerase II-specific. Involved in negative regulation of gene expression, epigenetic and retinal rod cell development. Located in cytoplasm and nucleus. Part of PRC1 complex. Is expressed in central nervous system; dorsal root ganglion; liver; metanephros; and neural retina. Human ortholog(s) of this gene implicated in macular degeneration. Orthologous to human SAMD7 (sterile alpha motif domain containing 7). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 1.3) and CNS E18 (RPKM 0.1) See more
    Orthologs
    human all
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    Genomic context

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    See Samd7 in Genome Data Viewer
    Location:
    3 A3; 3 14.27 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (30800481..30821323)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (30746293..30767174)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene leucine rich repeat containing 34 Neighboring gene STARR-seq mESC enhancer starr_07297 Neighboring gene STARR-seq mESC enhancer starr_07298 Neighboring gene leucine-rich repeats and IQ motif containing 4 Neighboring gene STARR-seq mESC enhancer starr_07299 Neighboring gene leucine rich repeat containing 31 Neighboring gene predicted gene 15462 Neighboring gene STARR-seq mESC enhancer starr_07301 Neighboring gene predicted gene, 33590 Neighboring gene SEC62 homolog, preprotein translocation Neighboring gene predicted gene, 42198

    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. Functional analysis of Samd11, a retinal photoreceptor PRC1 component, in establishing rod photoreceptor identity. Kubo S, et al. Sci Rep, 2021 Feb 18. PMID 33603070, Free PMC Article
    2. Samd7 is a cell type-specific PRC1 component essential for establishing retinal rod photoreceptor identity. Omori Y, et al. Proc Natl Acad Sci U S A, 2017 Sep 26. PMID 28900001, Free PMC Article
    3. Sterile alpha motif containing 7 (samd7) is a novel crx-regulated transcriptional repressor in the retina. Hlawatsch J, et al. PLoS One, 2013. PMID 23565263, Free PMC Article
    4. Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo. Evsikov AV, et al. Genes Dev, 2006 Oct 1. PMID 17015433, Free PMC Article
    5. Genomic analysis of mouse retinal development. Blackshaw S, et al. PLoS Biol, 2004 Sep. PMID 15226823, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The current study suggests that Samd7 is a cell type-specific PRC1 component epigenetically defining rod photoreceptor cell identity.
      Title: Samd7 is a cell type-specific PRC1 component essential for establishing retinal rod photoreceptor identity.
    2. Data have identified a novel retinal SAM domain protein, Samd7, which could act as a transcriptional repressor involved in fine-tuning of Crx-regulated gene expression.
      Title: Sterile alpha motif containing 7 (samd7) is a novel crx-regulated transcriptional repressor in the retina.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in retinal rod cell development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of PRC1 complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    sterile alpha motif domain-containing protein 7
    Names
    SAM domain-containing protein 7

    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_029489.4 → NP_083765.2  sterile alpha motif domain-containing protein 7

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and is a protein-coding transcript.
      Source sequence(s)
      AC158135
      Consensus CDS
      CCDS17285.2
      UniProtKB/Swiss-Prot
      F8WHA0, G3UXH0, Q8C8Y5
      Related
      ENSMUSP00000103897.4, ENSMUST00000108262.10
      Conserved Domains (1) summary
      cd09579
      Location:321 → 388
      SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

    RNA

    1. NR_028060.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate coding exon compared to variant 1. The resulting transcript is a candidate for nonsense-mediated mRNA decay (NMD) and is therefore not thought to be protein-coding.
      Source sequence(s)
      AC158135
      Related
      ENSMUST00000174395.8

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      30800481..30821323
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017319791.1 → XP_017175280.1  sterile alpha motif domain-containing protein 7 isoform X1

      UniProtKB/Swiss-Prot
      F8WHA0, G3UXH0, Q8C8Y5
      Conserved Domains (1) summary
      cd09579
      Location:321 → 388
      SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C8Y5.4 GenPept UniProtKB/Swiss-Prot:Q8C8Y5

    Gene LinkOut

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

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