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    Clmn calmin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299285, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Clmnprovided by RGD
    Official Full Name
    calminprovided by RGD
    Primary source
    RGD:1306741
    See related
    EnsemblRapid:ENSRNOG00000011044 AllianceGenome:RGD:1306741
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable actin filament binding activity. Predicted to be involved in negative regulation of cell population proliferation and nuclear migration. Predicted to act upstream of or within neuron projection development. Predicted to be part of meiotic nuclear membrane microtubule tethering complex. Predicted to be active in cytoplasm and nuclear outer membrane. Orthologous to human CLMN (calmin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 154.2), Liver (RPKM 44.2) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clmn in Genome Data Viewer
    Location:
    6q32
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (129470613..129572079, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (123707710..123807283, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (128473592..128567267, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479292 Neighboring gene dicer 1 ribonuclease III Neighboring gene uncharacterized LOC134479254 Neighboring gene uncharacterized LOC102555497 Neighboring gene uncharacterized LOC120103609 Neighboring gene spectrin repeat containing, nuclear envelope family member 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Calmin expression in embryos and the adult brain, and its regulation by all-trans retinoic acid. Marzinke MA, et al. Dev Dyn, 2010 Feb. PMID 20014094
    2. The all-trans retinoic acid (atRA)-regulated gene Calmin (Clmn) regulates cell cycle exit and neurite outgrowth in murine neuroblastoma (Neuro2a) cells. Marzinke MA, et al. Exp Cell Res, 2012 Jan 1. PMID 22001116
    3. Calmin, a protein with calponin homology and transmembrane domains expressed in maturing spermatogenic cells. Ishisaki Z, et al. Genomics, 2001 Jun 1. PMID 11386753
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. sensitive to retinoid status during early gestational stages; expression relegated to postmitotic neuronal cells in adult brain
      Title: Calmin expression in embryos and the adult brain, and its regulation by all-trans retinoic acid.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of cell population proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron projection development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of meiotic nuclear membrane microtubule tethering complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nuclear outer membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    calmin

    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_001106755.2 → NP_001100225.2  calmin

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A6JER4, D4A626
      Related
      ENSRNOP00000061235.2, ENSRNOT00000065529.4
      Conserved Domains (1) summary
      pfam00307
      Location:33 → 134
      CH; Calponin homology (CH) domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      129470613..129572079 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063261774.1 → XP_063117844.1  calmin isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZQ75

    2. XM_008764766.4 → XP_008762988.1  calmin isoform X2

      UniProtKB/TrEMBL
      A6JER4
      Conserved Domains (1) summary
      pfam00307
      Location:88 → 189
      CH; Calponin homology (CH) domain

    3. XM_063261773.1 → XP_063117843.1  calmin isoform X1

      UniProtKB/TrEMBL
      A6JER4

    4. XM_063261776.1 → XP_063117846.1  calmin isoform X5

      UniProtKB/TrEMBL
      A6JER4

    5. XM_063261775.1 → XP_063117845.1  calmin isoform X4

      UniProtKB/TrEMBL
      A6JER4

    6. XM_063261777.1 → XP_063117847.1  calmin isoform X6

      UniProtKB/TrEMBL
      A6JER4

    RNA

    1. XR_005505495.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    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
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