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    Gca grancalcin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 295647, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Gcaprovided by RGD
    Official Full Name
    grancalcinprovided by RGD
    Primary source
    RGD:1306589
    See related
    EnsemblRapid:ENSRNOG00000007359 AllianceGenome:RGD:1306589
    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; protein heterodimerization activity; and protein homodimerization activity. Predicted to be located in cytosol and plasma membrane. Orthologous to human GCA (grancalcin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 68.1), Brain (RPKM 56.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gca in Genome Data Viewer
    Location:
    3q21
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (67705874..67738475)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (47297320..47329913)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (48625965..48661317)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene fibroblast activation protein, alpha Neighboring gene interferon induced with helicase C domain 1 Neighboring gene SHOC2 leucine-rich repeat scaffold protein, pseudogene 1 Neighboring gene potassium voltage-gated channel subfamily H member 7 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC108350383

    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 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. Structure of Ca(2+)-loaded human grancalcin. Jia J, et al. Acta Crystallogr D Biol Crystallogr, 2001 Dec. PMID 11717497
    2. The PEF family proteins sorcin and grancalcin interact in vivo and in vitro. Hansen C, et al. FEBS Lett, 2003 Jun 19. PMID 12804766
    3. MHC class II-associated proteins in B-cell exosomes and potential functional implications for exosome biogenesis. Buschow SI, et al. Immunol Cell Biol, 2010 Nov-Dec. PMID 20458337
    4. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
    5. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    grancalcin

    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_001106483.5 → NP_001099953.1  grancalcin isoform 1

      See identical proteins and their annotated locations for NP_001099953.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A0A8I5ZL87, A6HLW1, D3ZYI0
      Conserved Domains (4) summary
      cd00051
      Location:67 → 122
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
      pfam02084
      Location:1 → 78
      Bindin; Bindin
      pfam13499
      Location:128 → 183
      EF-hand_7; EF-hand domain pair
      cl08302
      Location:97 → 152
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

    2. NM_001429792.1 → NP_001416721.1  grancalcin isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003

    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_086021.1 Reference GRCr8

      Range
      67705874..67738475
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104486.2 → XP_038960414.1  grancalcin isoform X1

      Related
      ENSRNOP00000078433.1, ENSRNOT00000094169.2
      Conserved Domains (2) summary
      cd15897
      Location:56 → 84
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:56 → 212
      EFh_PEF; The penta-EF hand (PEF) family

    2. XM_063283272.1 → XP_063139342.1  grancalcin isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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