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

Gene ID: 74035, updated on 2-Nov-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, Nov 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 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
  
involved_in phosphorylation IEA
Inferred from Electronic Annotation
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

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