U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Eefsec eukaryotic elongation factor, selenocysteine-tRNA-specific [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500255, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Eefsecprovided by RGD
    Official Full Name
    eukaryotic elongation factor, selenocysteine-tRNA-specificprovided by RGD
    Primary source
    RGD:1560552
    See related
    EnsemblRapid:ENSRNOG00000012954 AllianceGenome:RGD:1560552
    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
    Also known as
    RGD1560552
    Summary
    Predicted to enable several functions, including GTP binding activity; GTPase activity; and nucleic acid binding activity. Predicted to be involved in selenocysteine incorporation. Predicted to act upstream of or within regulation of translation and translational elongation. Predicted to be part of ribonucleoprotein complex. Orthologous to human EEFSEC (eukaryotic elongation factor, selenocysteine-tRNA specific). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 78.6), Testes (RPKM 59.6) and 9 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 Eefsec in Genome Data Viewer
    Location:
    4q34
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (122276907..122473049, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (120719616..120915779, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (120194335..120390203, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA29 Neighboring gene t-complex protein 1, pseudogene 1 Neighboring gene uncharacterized LOC120102335 Neighboring gene ribosomal protein S25 like 3 Neighboring gene RuvB-like AAA ATPase 1 Neighboring gene SEC61 translocon subunit alpha 1

    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. The selenocysteine-specific elongation factor contains a novel and multi-functional domain. Gonzalez-Flores JN, et al. J Biol Chem, 2012 Nov 9. PMID 22992746, Free PMC Article
    2. Supramolecular complexes mediate selenocysteine incorporation in vivo. Small-Howard A, et al. Mol Cell Biol, 2006 Mar. PMID 16508009, Free PMC Article
    3. Thymic lymphomas arising in Msh2 deficient mice display a large increase in mutation frequency and an altered mutational spectrum. Zhang S, et al. Mutat Res, 2002 Mar 20. PMID 11890935
    4. Decoding apparatus for eukaryotic selenocysteine insertion. Tujebajeva RM, et al. EMBO Rep, 2000 Aug. PMID 11265756, Free PMC Article
    5. Characterization of mSelB, a novel mammalian elongation factor for selenoprotein translation. Fagegaltier D, et al. EMBO J, 2000 Sep 1. PMID 10970870, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GTP binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribonucleoprotein complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables selenocysteine insertion sequence binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables translation elongation factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables translation elongation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in selenocysteine incorporation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within selenocysteine incorporation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in selenocysteine incorporation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    selenocysteine-specific elongation factor

    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_001109249.1 → NP_001102719.1  selenocysteine-specific elongation factor isoform 2

      See identical proteins and their annotated locations for NP_001102719.1

      Status: VALIDATED

      Source sequence(s)
      CH473957
      UniProtKB/TrEMBL
      A6IB42, D3Z9S4
      Related
      ENSRNOP00000058839.1, ENSRNOT00000063950.6
      Conserved Domains (3) summary
      cd01889
      Location:8 → 197
      SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
      pfam00009
      Location:8 → 195
      GTP_EFTU; Elongation factor Tu GTP binding domain
      cl02787
      Location:210 → 250
      Translation_Factor_II_like; Domain II of Elongation factor Tu (EF-Tu)-like proteins

    2. NM_001398914.1 → NP_001385843.1  selenocysteine-specific elongation factor isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I6AN39, A6IB43, B5DEJ5, F7ER27
      Related
      ENSRNOP00000017323.4, ENSRNOT00000017323.6
      Conserved Domains (3) summary
      cd01889
      Location:8 → 197
      SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
      cd03696
      Location:210 → 292
      SelB_II; Domain II of elongation factor SelB
      cd04094
      Location:297 → 437
      eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB

    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_086022.1 Reference GRCr8

      Range
      122276907..122473049 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039108166.2 → XP_038964094.1  selenocysteine-specific elongation factor isoform X1

      Conserved Domains (2) summary
      cd03696
      Location:1 → 81
      SelB_II; Domain II of elongation factor SelB
      cd04094
      Location:86 → 226
      eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    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