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Tsen54 tRNA splicing endonuclease subunit 54 [ Mus musculus (house mouse) ]

Gene ID: 76265, updated on 8-Dec-2022

Summary

Official Symbol
Tsen54provided by MGI
Official Full Name
tRNA splicing endonuclease subunit 54provided by MGI
Primary source
MGI:MGI:1923515
See related
Ensembl:ENSMUSG00000020781 AllianceGenome:MGI:1923515
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
0610034P02Rik
Summary
Predicted to be involved in tRNA-type intron splice site recognition and cleavage. Predicted to act upstream of or within mRNA processing and tRNA processing. Predicted to be located in nucleus. Predicted to be part of tRNA-intron endonuclease complex. Is expressed in cerebellum; retina inner nuclear layer; and retina outer nuclear layer. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 2A; pontocerebellar hypoplasia type 4; and pontocerebellar hypoplasia type 5. Orthologous to human TSEN54 (tRNA splicing endonuclease subunit 54). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in duodenum adult (RPKM 11.3), ovary adult (RPKM 11.0) and 28 other tissues See more
Orthologs
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Genomic context

See Tsen54 in Genome Data Viewer
Location:
11; 11 E2
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (115704563..115713928)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (115813728..115823102)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 94 Neighboring gene microRNA 5621 Neighboring gene CASK-interacting protein 2 Neighboring gene LLGL2 scribble cell polarity complex component Neighboring gene myosin XVB Neighboring gene RecQ protein-like 5

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Endonuclease-mediated (1) 

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
contributes_to tRNA-intron endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within tRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in tRNA splicing, via endonucleolytic cleavage and ligation ISO
Inferred from Sequence Orthology
more info
 
involved_in tRNA-type intron splice site recognition and cleavage IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of tRNA-intron endonuclease complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
tRNA-splicing endonuclease subunit Sen54
Names
likely ortholog of H. sapiens SEN54L
tRNA splicing endonuclease 54 homolog
tRNA-intron endonuclease Sen54

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_029557.1NP_083833.1  tRNA-splicing endonuclease subunit Sen54

    See identical proteins and their annotated locations for NP_083833.1

    Status: VALIDATED

    Source sequence(s)
    AK002758, BB273422, BY203746
    Consensus CDS
    CCDS25648.1
    UniProtKB/Swiss-Prot
    Q8C2A2, Q9DCI5
    Related
    ENSMUSP00000021134.4, ENSMUST00000021134.10
    Conserved Domains (1) summary
    pfam12928
    Location:63130
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    115704563..115713928
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006534415.4XP_006534478.1  tRNA-splicing endonuclease subunit Sen54 isoform X1

    See identical proteins and their annotated locations for XP_006534478.1

    Conserved Domains (2) summary
    PRK09297
    Location:181252
    PRK09297; tRNA-splicing endonuclease subunit alpha; Reviewed
    pfam12928
    Location:128195
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term
  2. XM_006534419.4XP_006534482.1  tRNA-splicing endonuclease subunit Sen54 isoform X2

    Conserved Domains (2) summary
    PRK09297
    Location:181234
    PRK09297; tRNA-splicing endonuclease subunit alpha; Reviewed
    pfam12928
    Location:128195
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term
  3. XM_006534417.4XP_006534480.1  tRNA-splicing endonuclease subunit Sen54 isoform X1

    See identical proteins and their annotated locations for XP_006534480.1

    Conserved Domains (2) summary
    PRK09297
    Location:181252
    PRK09297; tRNA-splicing endonuclease subunit alpha; Reviewed
    pfam12928
    Location:128195
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term
  4. XM_036157059.1XP_036012952.1  tRNA-splicing endonuclease subunit Sen54 isoform X3

    Conserved Domains (2) summary
    pfam12928
    Location:81148
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term
    cl40623
    Location:134187
    tRNA_int_end_N2; tRNA-splicing endonuclease subunit sen54 N-term

RNA

  1. XR_879757.4 RNA Sequence

  2. XR_004937055.1 RNA Sequence