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    Nol9 nucleolar protein 9 [ Mus musculus (house mouse) ]

    Gene ID: 74035, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nol9provided by MGI
    Official Full Name
    nucleolar protein 9provided by MGI
    Primary source
    MGI:MGI:1921285
    See related
    Ensembl:ENSMUSG00000028948 AllianceGenome:MGI:1921285
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4632412I24Rik; 6030462G04Rik
    Summary
    Predicted to enable ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity. Predicted to be involved in cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to be located in intermediate filament cytoskeleton and nucleolus. Predicted to be active in nucleus. Is expressed in brain and thymus. Orthologous to human NOL9 (nucleolar protein 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 14.1), thymus adult (RPKM 12.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nol9 in Genome Data Viewer
    Location:
    4 E2; 4 82.84 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (152123731..152145951)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (152039261..152061494)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6291 Neighboring gene zinc finger and BTB domain containing 48 Neighboring gene STARR-seq mESC enhancer starr_12192 Neighboring gene taste receptor, type 1, member 1 Neighboring gene pleckstrin homology domain containing, family G (with RhoGef domain) member 5 Neighboring gene STARR-seq mESC enhancer starr_12195 Neighboring gene tumor necrosis factor receptor superfamily, member 25

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. CLP1 acts as the main RNA kinase in mice. Fujinami H, et al. Biochem Biophys Res Commun, 2020 Feb 17. PMID 32081435
    2. Five friends of methylated chromatin target of protein-arginine-methyltransferase[prmt]-1 (chtop), a complex linking arginine methylation to desumoylation. Fanis P, et al. Mol Cell Proteomics, 2012 Nov. PMID 22872859, Free PMC Article
    3. Fgf and Esrrb integrate epigenetic and transcriptional networks that regulate self-renewal of trophoblast stem cells. Latos PA, et al. Nat Commun, 2015 Jul 24. PMID 26206133, Free PMC Article
    4. Spatiotemporal profile of postsynaptic interactomes integrates components of complex brain disorders. Li J, et al. Nat Neurosci, 2017 Aug. PMID 28671696, Free PMC Article
    5. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC159135

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables polynucleotide 5'-hydroxyl-kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in maturation of 5.8S rRNA ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in maturation of 5.8S rRNA ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in intermediate filament cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    polynucleotide 5'-hydroxyl-kinase NOL9
    NP_001153071.1
    NP_001365785.1
    NP_083003.2
    XP_017175901.1

    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_001159599.2 → NP_001153071.1  polynucleotide 5'-hydroxyl-kinase NOL9 isoform 1

      See identical proteins and their annotated locations for NP_001153071.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK047599, AK164493, BC051109, BC132099
      Consensus CDS
      CCDS51389.1
      UniProtKB/Swiss-Prot
      A0PJC7, B1AS65, Q05A31, Q3TZX8, Q8BQE1, Q8C8L5, Q8C9A8, Q9D678
      Related
      ENSMUSP00000081133.7, ENSMUST00000084116.13
      Conserved Domains (2) summary
      COG1341
      Location:305 → 662
      Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:322 → 454
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    2. NM_001378856.1 → NP_001365785.1  polynucleotide 5'-hydroxyl-kinase NOL9 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL611927
      Conserved Domains (2) summary
      COG1341
      Location:317 → 663
      Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:323 → 455
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    3. NM_028727.3 → NP_083003.2  polynucleotide 5'-hydroxyl-kinase NOL9 isoform 2

      See identical proteins and their annotated locations for NP_083003.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 3' terminal exon, and as a result, lacks a portion of the 3' coding region and has a distinct 3' UTR compared to variant 1. It encodes isoform (2), which has a shorter C-terminus than isoform 1.
      Source sequence(s)
      AI451196, AK014568, AK047599, AK164493, BC132099
      Consensus CDS
      CCDS18986.1
      UniProtKB/Swiss-Prot
      Q3TZX8
      Related
      ENSMUSP00000099486.4, ENSMUST00000103197.5
      Conserved Domains (2) summary
      COG1341
      Location:305 → 662
      Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:322 → 454
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    RNA

    1. NR_131076.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK047599, BC051109
      Related
      ENSMUST00000131696.3

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      152123731..152145951
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017320412.3 → XP_017175901.1  polynucleotide 5'-hydroxyl-kinase NOL9 isoform X1

      Conserved Domains (2) summary
      COG1341
      Location:317 → 663
      Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:323 → 455
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3TZX8.1 GenPept UniProtKB/Swiss-Prot:Q3TZX8

    Gene LinkOut

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

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