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    Cdc40 cell division cycle 40 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361859, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cdc40provided by RGD
    Official Full Name
    cell division cycle 40provided by RGD
    Primary source
    RGD:1307063
    See related
    EnsemblRapid:ENSRNOG00000000581 AllianceGenome:RGD:1307063
    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 mRNA binding activity. Predicted to be involved in embryonic brain development and mRNA splicing, via spliceosome. Predicted to be located in nuclear speck. Predicted to be part of U2-type catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 15. Orthologous to human CDC40 (cell division cycle 40). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 100.1), Thymus (RPKM 73.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cdc40 in Genome Data Viewer
    Location:
    20q12
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (45855739..45908239, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (44273080..44325605, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (48503973..48574546)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene D-aspartate oxidase Neighboring gene methyltransferase like 24 Neighboring gene uncharacterized LOC120098819 Neighboring gene uncharacterized LOC120098955 Neighboring gene WASP family member 1 Neighboring gene G protein-coupled receptor 6

    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. Functional conservation of the human homolog of the yeast pre-mRNA splicing factor Prp17p. Lindsey LA, et al. J Biol Chem, 1998 Dec 4. PMID 9830021
    2. Cryo-EM structure of a human spliceosome activated for step 2 of splicing. Bertram K, et al. Nature, 2017 Feb 16. PMID 28076346
    3. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. Jurica MS, et al. RNA, 2002 Apr. PMID 11991638, Free PMC Article
    4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) 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 mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in embryonic brain development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-processing factor 17
    Names
    cell division cycle 40 homolog

    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_001394220.1 → NP_001381149.1  pre-mRNA-processing factor 17

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      A0A0G2JW64, B2RYC1
      Related
      ENSRNOP00000069760.2, ENSRNOT00000077926.3
      Conserved Domains (2) summary
      cd00200
      Location:281 → 579
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:292 → 330
      7WD40; WD40 repeat [structural motif]

    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_086038.1 Reference GRCr8

      Range
      45855739..45908239 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279319.1 → XP_063135389.1  pre-mRNA-processing factor 17 isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108538.1: Suppressed sequence

      Description
      NM_001108538.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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