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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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