U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Efhc2 EF-hand domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 302507, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Efhc2provided by RGD
    Official Full Name
    EF-hand domain containing 2provided by RGD
    Primary source
    RGD:1563388
    See related
    EnsemblRapid:ENSRNOG00000002986 AllianceGenome:RGD:1563388
    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
    RGD1563388
    Summary
    Predicted to be involved in regulation of neuron projection development. Predicted to act upstream of or within cellular response to leukemia inhibitory factor. Predicted to be located in axonemal microtubule and ciliary basal body. Predicted to be active in axonemal A tubule inner sheath. Predicted to colocalize with microtubule. Orthologous to human EFHC2 (EF-hand domain containing 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 63.6), Testes (RPKM 47.4) and 4 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Efhc2 in Genome Data Viewer
    Location:
    Xq11
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (7943603..8144073)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (5360499..5564004)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (5825551..6026398)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene ferritin light chain 1 pseudogene Neighboring gene uncharacterized LOC120099197 Neighboring gene proteasome 20S subunit alpha 2, pseudogene 2 Neighboring gene basic leucine zipper nuclear factor 1, pseudogene 1 Neighboring gene norrin cystine knot growth factor NDP

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. miRNA 34a, 100, and 137 modulate differentiation of mouse embryonic stem cells. Tarantino C, et al. FASEB J, 2010 Sep. PMID 20439489
    2. 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

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in flagellated sperm motility IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in flagellated sperm motility ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of neuron projection development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in axonemal A tubule inner sheath ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axonemal microtubule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with microtubule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in sperm flagellum IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in sperm flagellum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    EF-hand domain-containing family member C2
    Names
    EF-hand domain (C-terminal) containing 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001106952.1 → NP_001100422.1  EF-hand domain-containing family member C2

      See identical proteins and their annotated locations for NP_001100422.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474009
      UniProtKB/TrEMBL
      A6JZW6, D3ZKF6
      Related
      ENSRNOP00000034132.4, ENSRNOT00000037360.7
      Conserved Domains (2) summary
      smart00676
      Location:75 → 182
      DM10; Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases
      pfam06565
      Location:453 → 485
      DUF1126; Repeat of unknown function (DUF1126)

    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_086039.1 Reference GRCr8

      Range
      7943603..8144073
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017601976.3 → XP_017457465.1  EF-hand domain-containing family member C2 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools