U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Toe1 target of EGR1, exonuclease [ Rattus norvegicus (Norway rat) ]

    Gene ID: 298443, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Toe1provided by RGD
    Official Full Name
    target of EGR1, exonucleaseprovided by RGD
    Primary source
    RGD:1309094
    See related
    EnsemblRapid:ENSRNOG00000017561 AllianceGenome:RGD:1309094
    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 poly(A)-specific ribonuclease activity and snRNA binding activity. Predicted to be involved in snRNA 3'-end processing. Predicted to be located in cytoplasm and nuclear body. Predicted to be active in Cajal body. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 7. Orthologous to human TOE1 (target of EGR1, exonuclease). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 107.6), Spleen (RPKM 83.0) 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 Toe1 in Genome Data Viewer
    Location:
    5q35
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (135507116..135510682, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (130270484..130274050, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (135659733..135663299, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene metabolism of cobalamin associated C Neighboring gene coiled-coil domain containing 163 Neighboring gene testis associated actin remodelling kinase 2 Neighboring gene ribosomal protein S26 like 4 Neighboring gene mutY DNA glycosylase Neighboring gene 4-hydroxyphenylpyruvate dioxygenase-like Neighboring gene ribosomal protein S20, pseudogene 2

    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. Biallelic mutations in the 3' exonuclease TOE1 cause pontocerebellar hypoplasia and uncover a role in snRNA processing. Lardelli RM, et al. Nat Genet, 2017 Mar. PMID 28092684, Free PMC Article
    2. An unconventional human Ccr4-Caf1 deadenylase complex in nuclear cajal bodies. Wagner E, et al. Mol Cell Biol, 2007 Mar. PMID 17178830, Free PMC Article
    3. 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

    Function Evidence Code Pubs
    enables 3'-5'-RNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 3'-5'-RNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly(A)-specific ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables snRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables snRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in snRNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Cajal body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Cajal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    target of EGR1 protein 1
    Names
    target of EGR1, member 1 (nuclear)

    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_001106680.1 → NP_001100150.1  target of EGR1 protein 1 isoform 2

      See identical proteins and their annotated locations for NP_001100150.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474008
      UniProtKB/TrEMBL
      A6JZ96, D4A5W0
      Related
      ENSRNOP00000061468.1, ENSRNOT00000066869.4
      Conserved Domains (1) summary
      pfam04857
      Location:41 → 257
      CAF1; CAF1 family ribonuclease

    2. NM_001399051.1 → NP_001385980.1  target of EGR1 protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A0G2JZE8, A6JZ98
      Related
      ENSRNOP00000071019.1, ENSRNOT00000087237.3
      Conserved Domains (1) summary
      pfam04857
      Location:41 → 280
      CAF1; CAF1 family ribonuclease

    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_086023.1 Reference GRCr8

      Range
      135507116..135510682 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109605.2 → XP_038965533.1  target of EGR1 protein 1 isoform X2

      UniProtKB/TrEMBL
      A6JZA4
      Conserved Domains (1) summary
      pfam04857
      Location:41 → 250
      CAF1; CAF1 family ribonuclease

    2. XM_039109603.2 → XP_038965531.1  target of EGR1 protein 1 isoform X1

      UniProtKB/TrEMBL
      A6JZ99, A6JZA1
      Conserved Domains (1) summary
      pfam04857
      Location:2 → 153
      CAF1; CAF1 family ribonuclease

    3. XM_063287424.1 → XP_063143494.1  target of EGR1 protein 1 isoform X1

      UniProtKB/TrEMBL
      A6JZA1

    4. XM_063287423.1 → XP_063143493.1  target of EGR1 protein 1 isoform X1

      UniProtKB/TrEMBL
      A6JZA1
    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