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    Clgn calmegin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685504, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Clgnprovided by RGD
    Official Full Name
    calmeginprovided by RGD
    Primary source
    RGD:1592643
    See related
    EnsemblRapid:ENSRNOG00000003755 AllianceGenome:RGD:1592643
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable calcium ion binding activity and protein folding chaperone. Predicted to be involved in ERAD pathway and protein folding. Predicted to act upstream of or within binding activity of sperm to zona pellucida and protein-containing complex assembly. Predicted to be located in endoplasmic reticulum. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human CLGN (calmegin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 393.6) and Brain (RPKM 15.4) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clgn in Genome Data Viewer
    Location:
    19q11
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (41601568..41633207, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (24695140..24728542, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (24545257..24578527)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 10 subfamily K member 2 Neighboring gene short coiled-coil protein Neighboring gene MGAT4 family, member D Neighboring gene ELMO domain containing 2

    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. Endoplasmic Reticulum Chaperone Calmegin Is Upregulated in Aldosterone-Producing Adenoma and Associates With Aldosterone Production. Itcho K, et al. Hypertension, 2020 Feb. PMID 31865789, Free PMC Article
    2. Characterization of domains in mice of calnexin-t, a putative molecular chaperone required in sperm fertility, with use of glutathione S-transferase-fusion proteins. Ohsako S, et al. Biol Reprod, 1998 Nov. PMID 9780330
    3. Molecular chaperone calmegin localization to the endoplasmic reticulum of meiotic and post-meiotic germ cells in the mouse testis. Yoshinaga K, et al. Arch Histol Cytol, 1999 Aug. PMID 10495883
    4. The putative chaperone calmegin is required for sperm fertility. Ikawa M, et al. Nature, 1997 Jun 5. PMID 9177349
    5. Molecular cloning and sequencing of calnexin-t. An abundant male germ cell-specific calcium-binding protein of the endoplasmic reticulum. Ohsako S, et al. J Biol Chem, 1994 May 13. PMID 8188695

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Endoplasmic Reticulum Chaperone Calmegin Is Upregulated in Aldosterone-Producing Adenoma and Associates With Aldosterone Production.
      Title: Endoplasmic Reticulum Chaperone Calmegin Is Upregulated in Aldosterone-Producing Adenoma and Associates With Aldosterone Production.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein folding chaperone ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables unfolded protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in ERAD pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within binding of sperm to zona pellucida ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein folding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within single fertilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear envelope IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    calmegin

    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_001109472.1 → NP_001102942.1  calmegin isoform 1 precursor

      See identical proteins and their annotated locations for NP_001102942.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473972
      UniProtKB/TrEMBL
      A0A8I6GKA5, A6IYF2
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    2. NM_001434600.1 → NP_001421529.1  calmegin isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5, A6IYF2

    3. NM_001434601.1 → NP_001421530.1  calmegin isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5, D3ZFS2

    4. NM_001434602.1 → NP_001421531.1  calmegin isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5, D3ZFS2

    5. NM_001434603.1 → NP_001421532.1  calmegin isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5, D3ZFS2

    6. NM_001434604.1 → NP_001421533.1  calmegin isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5, D3ZFS2

    7. NM_001434605.1 → NP_001421534.1  calmegin isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GKA5

    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_086037.1 Reference GRCr8

      Range
      41601568..41633207 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039097982.2 → XP_038953910.1  calmegin isoform X3

      Conserved Domains (1) summary
      pfam00262
      Location:2 → 346
      Calreticulin; Calreticulin family

    2. XM_039097980.2 → XP_038953908.1  calmegin isoform X2

      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    3. XM_006255298.5 → XP_006255360.1  calmegin isoform X1

      Related
      ENSRNOP00000005071.6, ENSRNOT00000005071.7
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    4. XM_063278275.1 → XP_063134345.1  calmegin isoform X1

    5. XM_006255299.5 → XP_006255361.1  calmegin isoform X1

      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    6. XM_063278276.1 → XP_063134346.1  calmegin isoform X1

    7. XM_039097981.2 → XP_038953909.1  calmegin isoform X2

      UniProtKB/TrEMBL
      A0A8I6GKA5, A6IYF2
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    8. XM_017601355.3 → XP_017456844.1  calmegin isoform X3

      UniProtKB/TrEMBL
      A0A8I6GKA5
      Conserved Domains (1) summary
      pfam00262
      Location:2 → 346
      Calreticulin; Calreticulin family
    Nucleotide Protein Strain
    Heading Accession and Version

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