U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Tsen2 tRNA splicing endonuclease subunit 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312649, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Tsen2provided by RGD
    Official Full Name
    tRNA splicing endonuclease subunit 2provided by RGD
    Primary source
    RGD:1309946
    See related
    EnsemblRapid:ENSRNOG00000060175 AllianceGenome:RGD:1309946
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1309946
    Summary
    Predicted to enable tRNA-intron endonuclease activity. Predicted to be involved in tRNA-type intron splice site recognition and cleavage. Predicted to be located in centrosome; cytosol; and nucleoplasm. Predicted to be part of tRNA-intron endonuclease complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 2B. Orthologous to human TSEN2 (tRNA splicing endonuclease subunit 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 42.8), Kidney (RPKM 35.4) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Tsen2 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (150275389..150310846)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (148602805..148638219)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (147455506..147490869)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene synapsin II Neighboring gene small nucleolar RNA SNORA76 Neighboring gene peroxisome proliferator-activated receptor gamma Neighboring gene MKRN2 opposite strand Neighboring gene makorin, ring finger protein, 2 Neighboring gene Raf-1 proto-oncogene, serine/threonine kinase

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Handling tRNA introns, archaeal way and eukaryotic way. Yoshihisa T. Front Genet, 2014. PMID 25071838, Free PMC Article
    2. The human RNA kinase hClp1 is active on 3' transfer RNA exons and short interfering RNAs. Weitzer S, et al. Nature, 2007 May 10. PMID 17495927
    3. 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
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA-intron endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA-intron endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA splicing, via endonucleolytic cleavage and ligation 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
    		  
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of tRNA-intron endonuclease complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    tRNA-splicing endonuclease subunit Sen2
    Names
    TSEN2 tRNA splicing endonuclease subunit
    tRNA-intron endonuclease Sen2
    tRNA-intron nuclease 2
    NP_001014079.1
    XP_008761462.1
    XP_008761464.1
    XP_038963566.1
    XP_038963567.1
    XP_063142160.1
    XP_063142161.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001014057.2 → NP_001014079.1  tRNA-splicing endonuclease subunit Sen2

      See identical proteins and their annotated locations for NP_001014079.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      Q5M954
      Conserved Domains (2) summary
      pfam02778
      Location:279 → 327
      tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain
      cd22363
      Location:337 → 428
      tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      150275389..150310846
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286091.1 → XP_063142161.1  tRNA-splicing endonuclease subunit Sen2 isoform X3

    2. XM_008763242.4 → XP_008761464.1  tRNA-splicing endonuclease subunit Sen2 isoform X1

      See identical proteins and their annotated locations for XP_008761464.1

      UniProtKB/Swiss-Prot
      Q5M954
      Conserved Domains (2) summary
      pfam02778
      Location:279 → 327
      tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain
      cd22363
      Location:337 → 428
      tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

    3. XM_008763240.4 → XP_008761462.1  tRNA-splicing endonuclease subunit Sen2 isoform X1

      See identical proteins and their annotated locations for XP_008761462.1

      UniProtKB/Swiss-Prot
      Q5M954
      Related
      ENSRNOP00000073692.1, ENSRNOT00000081957.3
      Conserved Domains (2) summary
      pfam02778
      Location:279 → 327
      tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain
      cd22363
      Location:337 → 428
      tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

    4. XM_039107638.2 → XP_038963566.1  tRNA-splicing endonuclease subunit Sen2 isoform X2

      Conserved Domains (2) summary
      pfam02778
      Location:184 → 232
      tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain
      cd22363
      Location:242 → 333
      tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

    5. XM_039107639.2 → XP_038963567.1  tRNA-splicing endonuclease subunit Sen2 isoform X2

      Conserved Domains (2) summary
      pfam02778
      Location:184 → 232
      tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain
      cd22363
      Location:242 → 333
      tRNA-intron_lyase_C; catalytic C-terminal domain of the tRNA-intron lyase

    6. XM_063286090.1 → XP_063142160.1  tRNA-splicing endonuclease subunit Sen2 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5M954.1 GenPept UniProtKB/Swiss-Prot:Q5M954

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools