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Efhd1 EF-hand domain family, member D1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 501181, updated on 11-Apr-2024

Summary

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Official Symbol
Efhd1provided by RGD
Official Full Name
EF-hand domain family, member D1provided by RGD
Primary source
RGD:1559565
See related
Ensembl:ENSRNOG00000015596 AllianceGenome:RGD:1559565
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
Also known as
RGD1559565
Summary
Predicted to enable calcium ion sensor activity. Predicted to be involved in regulation of cellular hyperosmotic salinity response. Predicted to act upstream of or within neuron projection development. Predicted to be active in mitochondrial inner membrane. Orthologous to human EFHD1 (EF-hand domain family member D1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 235.2), Testes (RPKM 158.0) and 7 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Efhd1 in Genome Data Viewer
Location:
9q35
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (95386155..95432800)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (87938259..87984917)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (94362249..94408884)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 4E family member 2 Neighboring gene U6 spliceosomal RNA Neighboring gene transfer RNA valine (anticodon AAC) 33 Neighboring gene GRB10 interacting GYF protein 2 Neighboring gene potassium inwardly-rectifying channel, subfamily J, member 13

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. Molecular characterization of mitocalcin, a novel mitochondrial Ca2+-binding protein with EF-hand and coiled-coil domains. Tominaga M, et al. J Neurochem, 2006 Jan. PMID 16336229
  2. Identification of EFHD1 as a novel Ca(2+) sensor for mitoflash activation. Hou T, et al. Cell Calcium, 2016 May. PMID 26975899
  3. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
  4. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
  5. 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

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 IEA
Inferred from Electronic Annotation
more info
  
enables calcium ion sensor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion sensor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within neuron projection development ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of cellular hyperosmotic salinity response ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in mitochondrial inner membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrial inner membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
EF-hand domain-containing protein D1
Names
EF hand domain containing 1

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_001109310.1 → NP_001102780.1  EF-hand domain-containing protein D1

    See identical proteins and their annotated locations for NP_001102780.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474004
    UniProtKB/TrEMBL
    A6JWM1, D4A9T5
    Related
    ENSRNOP00000021168.4, ENSRNOT00000021168.6
    Conserved Domains (1) summary
    cd00051
    Location:95 → 153
    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 ...

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_086027.1 Reference GRCr8

    Range
    95386155..95432800
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039084118.2 → XP_038940046.1  EF-hand domain-containing protein D1 isoform X1

    Conserved Domains (1) summary
    cd00051
    Location:95 → 153
    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. XM_006245468.4 → XP_006245530.1  EF-hand domain-containing protein D1 isoform X3

    UniProtKB/TrEMBL
    A0A8I6ASV0
    Related
    ENSRNOP00000096620.1
    Conserved Domains (2) summary
    cd00051
    Location:95 → 153
    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 ...
    pfam13499
    Location:96 → 153
    EF-hand_7; EF-hand domain pair

  3. XM_039084119.2 → XP_038940047.1  EF-hand domain-containing protein D1 isoform X2

    Conserved Domains (1) summary
    cd00051
    Location:95 → 153
    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 ...
Nucleotide Protein Strain
Heading Accession and Version

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