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    Cdk5rap1 CDK5 regulatory subunit associated protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 252827, updated on 15-Jun-2024

    Summary

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    Official Symbol
    Cdk5rap1provided by RGD
    Official Full Name
    CDK5 regulatory subunit associated protein 1provided by RGD
    Primary source
    RGD:708387
    See related
    Ensembl:ENSRNOG00000015696 AllianceGenome:RGD:708387
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable N6-isopentenyladenosine methylthiotransferase activity. Involved in positive regulation of cyclin-dependent protein serine/threonine kinase activity. Predicted to be located in mitochondrial inner membrane. Predicted to be active in cytosol and mitochondrion. Orthologous to human CDK5RAP1 (CDK5 regulatory subunit associated protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 123.6), Kidney (RPKM 123.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cdk5rap1 in Genome Data Viewer
    Location:
    3q41
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (163189435..163333003, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (142838081..142872669, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (149835953..149870429, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene BPI fold containing family B, member 1 Neighboring gene BPI fold containing family B, member 5 Neighboring gene mortality factor 4 like 2, pseudogene 1 Neighboring gene ribosomal protein lateral stalk subunit P1 like 3 Neighboring gene vomeromodulin-like Neighboring gene high mobility group box 1 like 3 Neighboring gene uncharacterized LOC120101761 Neighboring gene syntrophin, alpha 1 Neighboring gene CBFA2/RUNX1 partner transcriptional co-repressor 2 Neighboring gene spermine synthase, pseudogene 2

    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. Cdk5rap1-mediated 2-methylthio modification of mitochondrial tRNAs governs protein translation and contributes to myopathy in mice and humans. Wei FY, et al. Cell Metab, 2015 Mar 3. PMID 25738458
    2. Identification of a neuronal Cdk5 activator-binding protein as Cdk5 inhibitor. Ching YP, et al. J Biol Chem, 2002 May 3. PMID 11882646
    3. Identification of a common protein association region in the neuronal Cdk5 activator. Wang X, et al. J Biol Chem, 2000 Oct 13. PMID 10915792
    4. Cloning of three novel neuronal Cdk5 activator binding proteins. Ching YP, et al. Gene, 2000 Jan 25. PMID 10721722
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 4 iron, 4 sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables N6-isopentenyladenosine methylthiotransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables N6-isopentenyladenosine methylthiotransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-containing complex binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within mitochondrial tRNA modification ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cyclin-dependent protein serine/threonine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of translational fidelity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in tRNA methylthiolation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within tRNA methylthiolation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrial inner membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrion 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
    mitochondrial tRNA methylthiotransferase CDK5RAP1
    Names
    CDK5 activator-binding protein C42
    mt-tRNA-2-methylthio-N6-dimethylallyladenosine synthase
    mt-tRNA-N6-(dimethylallyl)adenosine(37) methylthiotransferase
    NP_663773.1
    XP_063139211.1
    XP_063139212.1
    XP_063139213.1

    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_145721.2 → NP_663773.1  mitochondrial tRNA methylthiotransferase CDK5RAP1

      See identical proteins and their annotated locations for NP_663773.1

      Status: PROVISIONAL

      Source sequence(s)
      BC066666
      UniProtKB/Swiss-Prot
      Q9JLH6
      UniProtKB/TrEMBL
      A6KHY4
      Related
      ENSRNOT00000021418.7
      Conserved Domains (1) summary
      PRK14329
      Location:85 → 571
      PRK14329; (dimethylallyl)adenosine tRNA methylthiotransferase; 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_086021.1 Reference GRCr8

      Range
      163189435..163333003 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283142.1 → XP_063139212.1  mitochondrial tRNA methylthiotransferase CDK5RAP1 isoform X2

    2. XM_063283143.1 → XP_063139213.1  mitochondrial tRNA methylthiotransferase CDK5RAP1 isoform X3

    3. XM_063283141.1 → XP_063139211.1  mitochondrial tRNA methylthiotransferase CDK5RAP1 isoform X1

      UniProtKB/Swiss-Prot
      Q9JLH6
      UniProtKB/TrEMBL
      A6KHY4

    RNA

    1. XR_010064566.1 RNA Sequence

    2. XR_010064567.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JLH6.1 GenPept UniProtKB/Swiss-Prot:Q9JLH6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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