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

Gene ID: 500255, updated on 13-Apr-2024

Summary

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Official Symbol
Eefsecprovided by RGD
Official Full Name
eukaryotic elongation factor, selenocysteine-tRNA-specificprovided by RGD
Primary source
RGD:1560552
See related
Ensembl: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 RNA binding activity. Predicted to be involved in selenocysteine incorporation. Predicted to be located in cytosol. Predicted to be part of ribonucleoprotein complex. Orthologous to human EEFSEC (eukaryotic elongation factor, selenocysteine-tRNA specific). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 78.6), Testes (RPKM 59.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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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. 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

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General gene information

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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
acts_upstream_of_or_within regulation of translation ISO
Inferred from Sequence Orthology
more info
  
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
  
acts_upstream_of_or_within translation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within translational elongation 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

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Preferred Names
selenocysteine-specific elongation factor

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_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, ENSRNOT00000063950.5
    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
    A6IB43, B5DEJ5, F7ER27
    Related
    ENSRNOP00000017323.4, ENSRNOT00000017323.5
    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

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