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Clmn calmin [ Rattus norvegicus (Norway rat) ]

Gene ID: 299285, updated on 13-Apr-2024

Summary

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Official Symbol
Clmnprovided by RGD
Official Full Name
calminprovided by RGD
Primary source
RGD:1306741
See related
Ensembl: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 integral component of membrane. 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, Apr 2022]
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
    ENSRNOP00000061235.1, ENSRNOT00000065529.3
    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

  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

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

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

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

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.

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