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Tsr2 TSR2 20S rRNA accumulation [ Mus musculus (house mouse) ]

Gene ID: 69499, updated on 5-Mar-2024

Summary

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Official Symbol
Tsr2provided by MGI
Official Full Name
TSR2 20S rRNA accumulationprovided by MGI
Primary source
MGI:MGI:1916749
See related
Ensembl:ENSMUSG00000025264 AllianceGenome:MGI:1916749
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
2310007F12Rik
Summary
Predicted to be involved in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to act upstream of or within rRNA processing. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Diamond-Blackfan anemia 14 with mandibulofacial dysostosis. Orthologous to human TSR2 (TSR2 ribosome maturation factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in frontal lobe adult (RPKM 12.0), CNS E18 (RPKM 11.2) and 26 other tissues See more
Orthologs
human all
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Genomic context

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Location:
X F3; X 68.46 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (149870090..149879539, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (151087094..151096543, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene guanine nucleotide binding protein nucleolar 3 like Neighboring gene STARR-positive B cell enhancer ABC_E8765 Neighboring gene STARR-seq mESC enhancer starr_48075 Neighboring gene predicted gene, 46690 Neighboring gene FYVE, RhoGEF and PH domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_48077 Neighboring gene STARR-seq mESC enhancer starr_48078 Neighboring gene 40S ribosomal protein S25 pseudogene Neighboring gene ribosomal protein S12, pseudogene 7

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. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
  2. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
  3. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
  4. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
  5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

See all (16) 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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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
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 rRNA processing IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
pre-rRNA-processing protein TSR2 homolog
Names
TSR2, 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_001164578.1 → NP_001158050.1  pre-rRNA-processing protein TSR2 homolog isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AI098563, AL805937, CF732210, CJ072126
    Consensus CDS
    CCDS53222.1
    UniProtKB/Swiss-Prot
    A2ALP6, Q8C8T8, Q8R3M9
    UniProtKB/TrEMBL
    H7BWY8
    Related
    ENSMUSP00000026295.4, ENSMUST00000026295.10
    Conserved Domains (1) summary
    pfam10273
    Location:13 → 92
    WGG; Pre-rRNA-processing protein TSR2

  2. NM_175146.4 → NP_780355.2  pre-rRNA-processing protein TSR2 homolog isoform 2

    See identical proteins and their annotated locations for NP_780355.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
    Source sequence(s)
    AI098563, AK044504, AL805937, CJ072126
    Consensus CDS
    CCDS30468.2
    UniProtKB/Swiss-Prot
    A2ALP6, Q8C8T8, Q8R3M9
    UniProtKB/TrEMBL
    Z4YL87
    Related
    ENSMUSP00000108303.3, ENSMUST00000112683.9
    Conserved Domains (1) summary
    pfam10273
    Location:13 → 92
    WGG; Pre-rRNA-processing protein TSR2

RNA

  1. NR_028392.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI098563, AL805937, BG083382, CJ072126

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_000086.8 Reference GRCm39 C57BL/6J

    Range
    149870090..149879539 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8C8T8.1 GenPept UniProtKB/Swiss-Prot:Q8C8T8

Gene LinkOut

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

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