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

Gene ID: 361859, updated on 27-Nov-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, Nov 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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