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    Eftud2 elongation factor Tu GTP binding domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287739, updated on 9-Dec-2024

    Summary

    Official Symbol
    Eftud2provided by RGD
    Official Full Name
    elongation factor Tu GTP binding domain containing 2provided by RGD
    Primary source
    RGD:1560116
    See related
    EnsemblRapid:ENSRNOG00000002818 AllianceGenome:RGD:1560116
    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 GTPase activity and U5 snRNA binding activity. Involved in cellular response to xenobiotic stimulus and response to cocaine. Predicted to be located in Cajal body and nuclear speck. Predicted to be part of U2-type catalytic step 2 spliceosome; U2-type precatalytic spliceosome; and U4/U6 x U5 tri-snRNP complex. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in esophageal atresia; hepatitis B; hepatocellular carcinoma; mandibulofacial dysostosis, Guion-Almeida type; and microcephaly. Orthologous to human EFTUD2 (elongation factor Tu GTP binding domain containing 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 147.2), Thymus (RPKM 135.7) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Eftud2 in Genome Data Viewer
    Location:
    10q32.1
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (88304992..88352229, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (87804893..87852181, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (90932071..90983971, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene gap junction protein, gamma 1 Neighboring gene HIG1 hypoxia inducible domain family, member 1B Neighboring gene dynein axonemal assembly factor 19 Neighboring gene family with sequence similarity 187, member A Neighboring gene glial fibrillary acidic protein Neighboring gene kinesin family member 18B

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GTP binding  
    enables GTPase activity  
    enables U5 snRNA binding  
    enables nucleotide binding  
    Component Evidence Code Pubs
    located_in Cajal body  
    part_of U2-type catalytic step 2 spliceosome  
    part_of U2-type catalytic step 2 spliceosome  
    part_of U2-type precatalytic spliceosome  
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of catalytic step 2 spliceosome  
    is_active_in cytosol  
    located_in cytosol  
    located_in intracellular membrane-bounded organelle  
    located_in nuclear speck  
    located_in nucleoplasm  
    located_in nucleus  

    General protein information

    Preferred Names
    116 kDa U5 small nuclear ribonucleoprotein component

    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_001398598.1NP_001385527.1  116 kDa U5 small nuclear ribonucleoprotein component isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6A4V7, F1LM66
      Conserved Domains (2) summary
      cl30786
      Location:122954
      FusA; Translation elongation factor EF-G, a GTPase [Translation, ribosomal structure and biogenesis]
      pfam16004
      Location:4110
      EFTUD2; 116 kDa U5 small nuclear ribonucleoprotein component N-terminus
    2. NM_001398599.1NP_001385528.1  116 kDa U5 small nuclear ribonucleoprotein component isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6A4V7
      Related
      ENSRNOP00000052049.4, ENSRNOT00000055176.5
      Conserved Domains (2) summary
      pfam16004
      Location:4109
      EFTUD2; 116 kDa U5 small nuclear ribonucleoprotein component N-terminus
      cl30786
      Location:121953
      PLN00116; translation elongation factor EF-2 subunit; Provisional

    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_086028.1 Reference GRCr8

      Range
      88304992..88352229 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268747.1XP_063124817.1  116 kDa U5 small nuclear ribonucleoprotein component isoform X1

      UniProtKB/TrEMBL
      A0A8I6A4V7, F1LM66
    2. XM_063268748.1XP_063124818.1  116 kDa U5 small nuclear ribonucleoprotein component isoform X2

      UniProtKB/TrEMBL
      A0A8I6A4V7
    3. XM_039087769.2XP_038943697.1  116 kDa U5 small nuclear ribonucleoprotein component isoform X1

      UniProtKB/TrEMBL
      A0A8I6A4V7, F1LM66
      Conserved Domains (2) summary
      cl30786
      Location:122954
      FusA; Translation elongation factor EF-G, a GTPase [Translation, ribosomal structure and biogenesis]
      pfam16004
      Location:4110
      EFTUD2; 116 kDa U5 small nuclear ribonucleoprotein component N-terminus
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