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Tsr1 TSR1 20S rRNA accumulation [ Mus musculus (house mouse) ]

Gene ID: 104662, updated on 2-Nov-2024

Summary

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Official Symbol
Tsr1provided by MGI
Official Full Name
TSR1 20S rRNA accumulationprovided by MGI
Primary source
MGI:MGI:2144566
See related
Ensembl:ENSMUSG00000038335 AllianceGenome:MGI:2144566
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
mKIAA1401
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 be located in nucleolus. Orthologous to human TSR1 (TSR1 ribosome maturation factor). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in placenta adult (RPKM 18.1), CNS E11.5 (RPKM 15.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Tsr1 in Genome Data Viewer
Location:
11 B5; 11 45.76 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (74788906..74800166)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (74898080..74909340)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7015 Neighboring gene max binding protein Neighboring gene small G protein signaling modulator 2 Neighboring gene microRNA 6926 Neighboring gene small nucleolar RNA, C/D box 91A Neighboring gene serine racemase Neighboring gene STARR-seq mESC enhancer starr_29979 Neighboring gene predicted gene, 22733 Neighboring gene SMG6 nonsense mediated mRNA decay factor Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:74826503-74826738 Neighboring gene SMT3 suppressor of mif two 3 homolog 2 pseudogene

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. RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity. Nitzsche A, et al. PLoS One, 2011 May 12. PMID 21589869, Free PMC Article
  2. Systematic identification of factors for provirus silencing in embryonic stem cells. Yang BX, et al. Cell, 2015 Sep 24. PMID 26365490, 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. Tagging genes with cassette-exchange sites. Cobellis G, et al. Nucleic Acids Res, 2005 Mar 1. PMID 15741177, Free PMC Article
  5. Transcription factor Foxp3 and its protein partners form a complex regulatory network. Rudra D, et al. Nat Immunol, 2012 Oct. PMID 22922362, Free PMC Article

See all (25) 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

Gene Ontology Provided by MGI

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
  
involved_in ribosome biogenesis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
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_177325.3 → NP_796299.2  pre-rRNA-processing protein TSR1 homolog

    See identical proteins and their annotated locations for NP_796299.2

    Status: VALIDATED

    Source sequence(s)
    AK129350, BF455129, CD547366
    Consensus CDS
    CCDS36225.1
    UniProtKB/Swiss-Prot
    Q3TMW6, Q3TRK6, Q3U4T2, Q3UYU4, Q3V3X8, Q5SWD9, Q6ZPR9, Q8K2F5
    Related
    ENSMUSP00000039027.8, ENSMUST00000045807.14
    Conserved Domains (5) summary
    smart00785
    Location:228 → 309
    AARP2CN; AARP2CN (NUC121) domain
    COG5177
    Location:32 → 774
    COG5177; Uncharacterized conserved protein [Function unknown]
    pfam04950
    Location:489 → 772
    RIBIOP_C; 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal
    cl00388
    Location:455 → 482
    Thioredoxin_like; Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold
    cl21455
    Location:140 → 255
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    74788906..74800166
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5SWD9.1 GenPept UniProtKB/Swiss-Prot:Q5SWD9

Gene LinkOut

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

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