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Tsr3 TSR3 20S rRNA accumulation [ Mus musculus (house mouse) ]

Gene ID: 68327, updated on 5-Mar-2024

Summary

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Official Symbol
Tsr3provided by MGI
Official Full Name
TSR3 20S rRNA accumulationprovided by MGI
Primary source
MGI:MGI:1915577
See related
Ensembl:ENSMUSG00000015126 AllianceGenome:MGI:1915577
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
0610007P22Rik; 1110014B11Rik
Summary
Predicted to enable transferase activity. Predicted to be involved in enzyme-directed rRNA pseudouridine synthesis and maturation of SSU-rRNA. Predicted to act upstream of or within ribosome biogenesis. Predicted to be located in cytoplasm. Is expressed in diencephalon mantle layer; hypothalamus mantle layer; hypothalamus ventricular layer; and thalamus mantle layer. Orthologous to human TSR3 (TSR3 ribosome maturation factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 26.8), CNS E14 (RPKM 18.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
17 A3.3; 17 12.53 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (25459120..25461773)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (25240141..25242799)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:25321285-25321526 Neighboring gene ubiquinol-cytochrome c reductase complex assembly factor 4 Neighboring gene predicted gene, 52286 Neighboring gene unkempt family like zinc finger Neighboring gene N-acetylglucosamine-1-phosphotransferase, gamma subunit Neighboring gene BAI1-associated protein 3 Neighboring gene microRNA 3547 Neighboring gene ubiquitin-conjugating enzyme E2I Neighboring gene STARR-positive B cell enhancer ABC_E8659 Neighboring gene predicted gene, 17801

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. A genomic atlas of mouse hypothalamic development. Shimogori T, et al. Nat Neurosci, 2010 Jun. PMID 20436479, Free PMC Article
  2. Isolation of novel tissue-specific genes from cDNA libraries representing the individual tissue constituents of the gastrulating mouse embryo. Harrison SM, et al. Development, 1995 Aug. PMID 7671812
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (14) 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)
  • Targeted (1) 

General gene information

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Markers

Homology

Clone Names

  • MGC113771

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 18S rRNA aminocarboxypropyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables transferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in enzyme-directed rRNA pseudouridine synthesis ISO
Inferred from Sequence Orthology
more info
  
involved_in maturation of SSU-rRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within rRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in rRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within ribosome biogenesis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
18S rRNA aminocarboxypropyltransferase
Names
20S S rRNA accumulation protein 3 homolog
probable ribosome biogenesis protein C16orf42 homolog
ribosome biogenesis protein TSR3 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_001163718.1 → NP_001157190.1  18S rRNA aminocarboxypropyltransferase isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AK158743, BC089019, CA979987
    UniProtKB/Swiss-Prot
    Q5HZH2
    Related
    ENSMUSP00000159935.1, ENSMUST00000249830.1
    Conserved Domains (3) summary
    PRK02287
    Location:65 → 216
    PRK02287; hypothetical protein; Provisional
    pfam04034
    Location:96 → 212
    DUF367; Domain of unknown function (DUF367)
    pfam04068
    Location:60 → 92
    RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

  2. NM_026676.3 → NP_080952.2  18S rRNA aminocarboxypropyltransferase isoform 1

    See identical proteins and their annotated locations for NP_080952.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK158743, BC089019
    Consensus CDS
    CCDS28512.1
    UniProtKB/Swiss-Prot
    Q5HZH2, Q9DD00
    Related
    ENSMUSP00000068511.7, ENSMUST00000063574.8
    Conserved Domains (3) summary
    PRK02287
    Location:65 → 223
    PRK02287; hypothetical protein; Provisional
    pfam04034
    Location:96 → 219
    DUF367; Domain of unknown function (DUF367)
    pfam04068
    Location:60 → 92
    RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

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_000083.7 Reference GRCm39 C57BL/6J

    Range
    25459120..25461773
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006524842.4 → XP_006524905.1  18S rRNA aminocarboxypropyltransferase isoform X7

    Conserved Domains (1) summary
    pfam04034
    Location:1 → 85
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  2. XM_036160763.1 → XP_036016656.1  18S rRNA aminocarboxypropyltransferase isoform X5

    Conserved Domains (1) summary
    pfam04034
    Location:1 → 85
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  3. XM_006524840.4 → XP_006524903.1  18S rRNA aminocarboxypropyltransferase isoform X4

    Conserved Domains (2) summary
    pfam04034
    Location:35 → 160
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
    pfam04068
    Location:1 → 31
    RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

  4. XM_036160759.1 → XP_036016652.1  18S rRNA aminocarboxypropyltransferase isoform X1

    Related
    ENSMUSP00000159936.1, ENSMUST00000249831.1
    Conserved Domains (2) summary
    pfam04034
    Location:96 → 221
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
    pfam04068
    Location:60 → 92
    RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

  5. XM_030250016.2 → XP_030105876.1  18S rRNA aminocarboxypropyltransferase isoform X6

    UniProtKB/TrEMBL
    Q8CHV1
    Related
    ENSMUSP00000159937.1, ENSMUST00000249833.1
    Conserved Domains (1) summary
    pfam04034
    Location:12 → 126
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  6. XM_036160760.1 → XP_036016653.1  18S rRNA aminocarboxypropyltransferase isoform X2

    Conserved Domains (2) summary
    pfam04034
    Location:35 → 160
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
    pfam04068
    Location:1 → 31
    RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

  7. XM_011246586.4 → XP_011244888.1  18S rRNA aminocarboxypropyltransferase isoform X6

    See identical proteins and their annotated locations for XP_011244888.1

    UniProtKB/TrEMBL
    Q8CHV1
    Conserved Domains (1) summary
    pfam04034
    Location:12 → 126
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  8. XM_036160761.1 → XP_036016654.1  18S rRNA aminocarboxypropyltransferase isoform X3

    Conserved Domains (1) summary
    pfam04034
    Location:12 → 126
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  9. XM_036160764.1 → XP_036016657.1  18S rRNA aminocarboxypropyltransferase isoform X6

    UniProtKB/TrEMBL
    Q8CHV1
    Conserved Domains (1) summary
    pfam04034
    Location:12 → 126
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal

  10. XM_036160762.1 → XP_036016655.1  18S rRNA aminocarboxypropyltransferase isoform X3

    Conserved Domains (1) summary
    pfam04034
    Location:12 → 126
    Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5HZH2.1 GenPept UniProtKB/Swiss-Prot:Q5HZH2

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