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    Samd5 sterile alpha motif domain containing 5 [ Mus musculus (house mouse) ]

    Gene ID: 320825, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Samd5provided by MGI
    Official Full Name
    sterile alpha motif domain containing 5provided by MGI
    Primary source
    MGI:MGI:2444815
    See related
    Ensembl:ENSMUSG00000060487 AllianceGenome:MGI:2444815
    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
    E130306M17Rik
    Summary
    Located in cytoplasm. Is expressed in diencephalon roof plate and thalamus mantle layer. Orthologous to human SAMD5 (sterile alpha motif domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in adrenal adult (RPKM 1.4), whole brain E14.5 (RPKM 1.0) and 23 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    10 A1; 10 3.15 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (9138205..9551670, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (9262461..9675926, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene SAM and SH3 domain containing 1 Neighboring gene predicted gene, 48727 Neighboring gene predicted gene, 51794 Neighboring gene STARR-seq mESC enhancer starr_25728 Neighboring gene STARR-seq mESC enhancer starr_25729 Neighboring gene predicted gene, 48750 Neighboring gene STARR-seq mESC enhancer starr_25730 Neighboring gene STARR-seq mESC enhancer starr_25731 Neighboring gene STARR-seq mESC enhancer starr_25733 Neighboring gene STARR-seq mESC enhancer starr_25734 Neighboring gene STARR-seq mESC enhancer starr_25735 Neighboring gene cytochrome c, somatic pseudogene Neighboring gene predicted gene, 31471 Neighboring gene predicted gene 6150

    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. Expression and localization of sterile alpha motif domain containing 5 is associated with cell type and malignancy of biliary tree. Yagai T, et al. PLoS One, 2017. PMID 28388653, Free PMC Article
    2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    3. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    sterile alpha motif domain-containing protein 5
    Names
    SAM domain-containing protein 5

    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_177271.3 → NP_796245.2  sterile alpha motif domain-containing protein 5

      See identical proteins and their annotated locations for NP_796245.2

      Status: VALIDATED

      Source sequence(s)
      AK087498, AK132444
      Consensus CDS
      CCDS35836.1
      UniProtKB/Swiss-Prot
      A6H5X3, Q3V1H9, Q8BJC5
      UniProtKB/TrEMBL
      A0A0R4J186
      Related
      ENSMUSP00000097648.3, ENSMUST00000100070.5
      Conserved Domains (2) summary
      cd09527
      Location:2 → 64
      SAM_Samd5; SAM domain of Samd5 subfamily
      smart00454
      Location:6 → 65
      SAM; Sterile alpha 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_000076.7 Reference GRCm39 C57BL/6J

      Range
      9138205..9551670 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017313970.2 → XP_017169459.1  sterile alpha motif domain-containing protein 5 isoform X1

      UniProtKB/Swiss-Prot
      A6H5X3, Q3V1H9, Q8BJC5
      Conserved Domains (1) summary
      cd09527
      Location:2 → 64
      SAM_Samd5; SAM domain of Samd5 subfamily
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3V1H9.1 GenPept UniProtKB/Swiss-Prot:Q3V1H9

    Gene LinkOut

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

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