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    Clmn calmin [ Mus musculus (house mouse) ]

    Gene ID: 94040, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Clmnprovided by MGI
    Official Full Name
    calminprovided by MGI
    Primary source
    MGI:MGI:2136957
    See related
    Ensembl:ENSMUSG00000021097 AllianceGenome:MGI:2136957
    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
    mKIAA1188; 9330188N17Rik
    Summary
    Predicted to enable actin filament binding activity. Acts upstream of or within negative regulation of cell population proliferation and neuron projection development. Located in cytoplasm. Is expressed in several structures, including alimentary system; brain; limb; metanephros; and nose. Orthologous to human CLMN (calmin). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Broad expression in testis adult (RPKM 13.1), colon adult (RPKM 8.0) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Clmn in Genome Data Viewer
    Location:
    12 E; 12 54.91 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (104729373..104831335, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (104763114..104865082, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 31573 Neighboring gene dicer 1, ribonuclease type III Neighboring gene STARR-positive B cell enhancer ABC_E7176 Neighboring gene STARR-seq mESC enhancer starr_33151 Neighboring gene predicted gene, 53761 Neighboring gene STARR-seq mESC enhancer starr_33155 Neighboring gene spectrin repeat containing, nuclear envelope family member 3 Neighboring gene STARR-positive B cell enhancer ABC_E1453 Neighboring gene STARR-seq mESC enhancer starr_33158 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:106251266-106251483 Neighboring gene STARR-positive B cell enhancer ABC_E7177 Neighboring gene predicted gene, 31742 Neighboring gene small Cajal body-specific RNA 13 Neighboring gene microRNA 3069 Neighboring gene small nucleolar RNA host gene 10

    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 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 of calmin, a novel developmentally regulated brain protein with calponin-homology domains. Takaishi M, et al. Brain Res Mol Brain Res, 2003 Apr 10. PMID 12670712
    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. Identification of anchor genes during kidney development defines ontological relationships, molecular subcompartments and regulatory pathways. Thiagarajan RD, et al. PLoS One, 2011 Feb 28. PMID 21386911, Free PMC Article
    5. Comprehensive identification of phosphorylation sites in postsynaptic density preparations. Trinidad JC, et al. Mol Cell Proteomics, 2006 May. PMID 16452087

    See all (28) 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)
    • Targeted (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA1188

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables actin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of meiotic nuclear membrane microtubule tethering complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    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
    Names
    calponin-like transmembrane domain protein

    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_001040682.1 → NP_001035772.1  calmin isoform b

      See identical proteins and their annotated locations for NP_001035772.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon in the 3' coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
      Source sequence(s)
      AC124364, AC133077, AK077023
      Consensus CDS
      CCDS36540.1
      UniProtKB/TrEMBL
      B9EJ15
      Related
      ENSMUSP00000105562.2, ENSMUST00000109936.3
      Conserved Domains (1) summary
      pfam00307
      Location:33 → 134
      CH; Calponin homology (CH) domain

    2. NM_053155.2 → NP_444385.2  calmin isoform a

      See identical proteins and their annotated locations for NP_444385.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (a).
      Source sequence(s)
      AC124364, AC133077, AK077023
      Consensus CDS
      CCDS36541.1
      UniProtKB/Swiss-Prot
      Q8C5W0, Q91V71, Q91XT7, Q91XT8, Q91XU9
      UniProtKB/TrEMBL
      B9EJ15
      Related
      ENSMUSP00000105563.2, ENSMUST00000109937.9
      Conserved Domains (1) summary
      pfam00307
      Location:33 → 134
      CH; Calponin homology (CH) domain

    RNA

    1. NR_104435.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) has an additional exon in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124364, AC133077, AW494443

    2. NR_104436.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) has an additional exon and an alternate splice site and also lacks an alternate exon in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124364, AC133077, AW494443

    3. NR_104437.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) has an additional exon and also lacks an alternate exon in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124364, AC133077, AW494443

    4. NR_104438.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an additional exon and an alternate splice site in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124364, AC133077, AW494443

    5. NR_104439.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) has an alternate splice site and also lacks an alternate exon in the 3' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124364, AC133077, AW494443

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      104729373..104831335 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_001780506.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C5W0.2 GenPept UniProtKB/Swiss-Prot:Q8C5W0

    Gene LinkOut

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

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