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    tsr1 TSR1 ribosome maturation factor [ Danio rerio (zebrafish) ]

    Gene ID: 325037, updated on 27-Mar-2024

    Summary

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    Official Symbol
    tsr1provided by ZNC
    Official Full Name
    TSR1 ribosome maturation factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-3762
    See related
    Ensembl:ENSDARG00000007744 AllianceGenome:ZFIN:ZDB-GENE-030131-3762
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fc52b09; wu:fc52b09; zgc:123319
    Summary
    Predicted to enable GTP binding activity; GTPase activity; and U3 snoRNA binding activity. Predicted to be involved in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to act upstream of or within ribosome biogenesis. Predicted to be located in nucleolus. Predicted to be part of preribosome, small subunit precursor. Orthologous to human TSR1 (TSR1 ribosome maturation factor). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 15
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (25635312..25656345)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (25700037..25721067)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene tumor protein p53 inducible protein 13 Neighboring gene TAO kinase 1a Neighboring gene hypermethylated in cancer 1 Neighboring gene microRNA 212

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC123319

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables GTP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables U3 snoRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of preribosome, small subunit precursor IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pre-rRNA-processing protein TSR1 homolog
    Names
    TSR1, 20S rRNA accumulation, 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_001037370.2 → NP_001032447.2  pre-rRNA-processing protein TSR1 homolog

      Status: VALIDATED

      Source sequence(s)
      CT027805
      UniProtKB/TrEMBL
      A0A0R4IKX4, A0A8M1N870
      Related
      ENSDARP00000136648.1, ENSDART00000162240.2
      Conserved Domains (4) summary
      COG5177
      Location:20 → 793
      COG5177; Uncharacterized conserved protein [Function unknown]
      pfam04950
      Location:509 → 791
      RIBIOP_C; 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal
      pfam08142
      Location:239 → 321
      AARP2CN; AARP2CN (NUC121) domain
      cl21455
      Location:141 → 268
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007126.7 Reference GRCz11 Primary Assembly

      Range
      25635312..25656345
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005157568.4 → XP_005157625.1  pre-rRNA-processing protein TSR1 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8M2B3Q8, E7FCX4
      Related
      ENSDARP00000052644.6, ENSDART00000052645.8
      Conserved Domains (4) summary
      COG5177
      Location:20 → 807
      COG5177; Uncharacterized conserved protein [Function unknown]
      pfam04950
      Location:523 → 805
      RIBIOP_C; 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal
      pfam08142
      Location:239 → 321
      AARP2CN; AARP2CN (NUC121) domain
      cl21455
      Location:141 → 268
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    Nucleotide Protein
    Heading Accession and Version

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