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    Clgn calmegin [ Mus musculus (house mouse) ]

    Gene ID: 12745, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Clgnprovided by MGI
    Official Full Name
    calmeginprovided by MGI
    Primary source
    MGI:MGI:107472
    See related
    Ensembl:ENSMUSG00000002190 AllianceGenome:MGI:107472
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Cln; A2/6; 4930459O04Rik
    Summary
    This gene belongs to the calreticulin family, which includes calreticulin, calnexin, and calmegin, and encodes a calcium-binding molecular chaperone specifically expressed in pachytene stage male germ cells. It is required for the proper folding of newly synthesized membrane proteins in the endoplasmic reticulum including those critical for sperm migration from the uterus into the oviduct and sperm adhesion to and penetration of the zona pellucida. This gene plays a key role in spermatogenesis and male infertility. Alternative splice variants exist for this gene. [provided by RefSeq, Jul 2016]
    Expression
    Biased expression in testis adult (RPKM 55.5), cerebellum adult (RPKM 3.2) and 1 other tissue See more
    Orthologs
    human all
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    Genomic context

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    See Clgn in Genome Data Viewer
    Location:
    8 C2; 8 39.97 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (84116454..84155181)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (83389790..83428552)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene MGAT4 family, member C Neighboring gene cofilin 1, non-muscle pseudogene Neighboring gene STARR-seq mESC enhancer starr_22081 Neighboring gene predicted gene, 32377 Neighboring gene STARR-positive B cell enhancer mm9_chr8:85966309-85966610 Neighboring gene short coiled-coil protein Neighboring gene pescadillo homolog pseudogene

    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. Lessons Learned in Andrology: seeing is believing. Okabe M. Andrology, 2014 Jan. PMID 24357627
    2. Pluripotency of a single spermatogonial stem cell in mice. Kanatsu-Shinohara M, et al. Biol Reprod, 2008 Apr. PMID 18199882
    3. Sperm from the calmegin-deficient mouse have normal abilities for binding and fusion to the egg plasma membrane. Yamagata K, et al. Dev Biol, 2002 Oct 15. PMID 12376108
    4. Selective passage through the uterotubal junction of sperm from a mixed population produced by chimeras of calmegin-knockout and wild-type male mice. Nakanishi T, et al. Biol Reprod, 2004 Sep. PMID 15151931
    5. 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

    See all (43) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Calmegin-knockout sperm, even when they were combined in chimeric ejaculates with wild-type sperm, remained outside of the uterotubal junction.
      Title: Selective passage through the uterotubal junction of sperm from a mixed population produced by chimeras of calmegin-knockout and wild-type male mice.
    2. The sperm defect in calmegin-null animals is not at the level of sperm-EPM binding but rather may involve either sperm-ZP binding and/or sperm transit to the oviduct.
      Title: Sperm from the calmegin-deficient mouse have normal abilities for binding and fusion to the egg plasma membrane.
    3. calmegin expression is regulated by histone deacetylase and CpG methyltransferase in a coordinative way
      Title: Coordinated transcriptional regulation of calmegin,a testis-specific molecular chaperon, by histone deacetylase and CpG methyltransferase.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (2)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein folding chaperone IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in meiotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein folding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein folding IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within single fertilization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    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 endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    calmegin
    Names
    MEG 1 antigen
    calnexin-T

    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_001329627.1 → NP_001316556.1  calmegin isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC155304, AK019534, AW456491, BY100733
      Consensus CDS
      CCDS22452.1
      UniProtKB/Swiss-Prot
      P52194, Q80YU3, Q9D2K5
      Related
      ENSMUSP00000002259.7, ENSMUST00000002259.13
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    2. NM_001329680.1 → NP_001316609.1  calmegin isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an internal exon which results in a distinct 5' UTR and the use of a downstream translation start site compared to transcript variant 1. The encoded isoform has a shorter N-terminus compared to isoform (2).
      Source sequence(s)
      AC155304, AW456491
      Conserved Domains (1) summary
      pfam00262
      Location:1 → 251
      Calreticulin; Calreticulin family

    3. NM_009904.4 → NP_034034.2  calmegin isoform 1 precursor

      See identical proteins and their annotated locations for NP_034034.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC155304, AW456491, BC050767, BY100733
      Consensus CDS
      CCDS22452.1
      UniProtKB/Swiss-Prot
      P52194, Q80YU3, Q9D2K5
      Related
      ENSMUSP00000105457.3, ENSMUST00000109831.3
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      84116454..84155181
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011248296.4 → XP_011246598.1  calmegin isoform X1

      See identical proteins and their annotated locations for XP_011246598.1

      Conserved Domains (1) summary
      pfam00262
      Location:66 → 433
      Calreticulin; Calreticulin family

    2. XM_011248298.4 → XP_011246600.1  calmegin isoform X2

      See identical proteins and their annotated locations for XP_011246600.1

      UniProtKB/Swiss-Prot
      P52194, Q80YU3, Q9D2K5
      Conserved Domains (1) summary
      pfam00262
      Location:62 → 429
      Calreticulin; Calreticulin family

    3. XM_030243276.2 → XP_030099136.1  calmegin isoform X4

      Conserved Domains (1) summary
      pfam00262
      Location:1 → 251
      Calreticulin; Calreticulin family

    4. XM_006530636.4 → XP_006530699.1  calmegin isoform X3

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

    5. XM_017312554.2 → XP_017168043.1  calmegin isoform X4

      Conserved Domains (1) summary
      pfam00262
      Location:1 → 251
      Calreticulin; Calreticulin family

    6. XM_030243275.1 → XP_030099135.1  calmegin isoform X3

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

    7. XM_011248297.3 → XP_011246599.1  calmegin isoform X1

      See identical proteins and their annotated locations for XP_011246599.1

      Conserved Domains (1) summary
      pfam00262
      Location:66 → 433
      Calreticulin; Calreticulin family
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P52194.2 GenPept UniProtKB/Swiss-Prot:P52194

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