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tsen2 TSEN2 tRNA splicing endonuclease subunit [ Danio rerio (zebrafish) ]

Gene ID: 767713, updated on 18-Sep-2024

Summary

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Official Symbol
tsen2provided by ZNC
Official Full Name
TSEN2 tRNA splicing endonuclease subunitprovided by ZNC
Primary source
ZFIN:ZDB-GENE-060929-918
See related
Ensembl:ENSDARG00000091851 AllianceGenome:ZFIN:ZDB-GENE-060929-918
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:154067
Summary
Predicted to enable tRNA-intron endonuclease activity. Predicted to be involved in tRNA-type intron splice site recognition and cleavage. Predicted to act upstream of or within mRNA processing and tRNA splicing, via endonucleolytic cleavage and ligation. Predicted to be located in nucleus. Predicted to be part of tRNA-intron endonuclease complex. 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, Apr 2022]
Annotation information
Annotation category: partial on reference assembly
Orthologs
human mouse all
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Genomic context

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See tsen2 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (588109..601821, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (561611..575323, complement)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene MKRN2 opposite strand, tandem duplicate 1 Neighboring gene MKRN2 opposite strand, tandem duplicate 2 Neighboring gene uncharacterized LOC137496662 Neighboring gene peroxisome proliferator-activated receptor gamma Neighboring gene synapsin IIb Neighboring gene TIMP metallopeptidase inhibitor 4, tandem duplicate 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Differential expression of synapsin genes during early zebrafish development. Garbarino G, et al. Neuroscience, 2014 Nov 7. PMID 25239370
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. 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
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Clone Names

  • MGC154067

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables lyase activity IEA
Inferred from Electronic Annotation
more info
  
enables nuclease 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 tRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within tRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tRNA splicing, via endonucleolytic cleavage and ligation IEA
Inferred from Electronic Annotation
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
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
part_of tRNA-intron endonuclease complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
tRNA-splicing endonuclease subunit Sen2
Names
tRNA splicing endonuclease 2 homolog
NP_001070119.1

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_001076651.1 → NP_001070119.1  tRNA-splicing endonuclease subunit Sen2

    See identical proteins and their annotated locations for NP_001070119.1

    Status: PROVISIONAL

    Source sequence(s)
    BC124530
    UniProtKB/TrEMBL
    Q08BW3
    Related
    ENSDARP00000095278.5, ENSDART00000104505.6
    Conserved Domains (3) summary
    COG1676
    Location:270 → 396
    SEN2; tRNA splicing endonuclease [Translation, ribosomal structure and biogenesis]
    pfam01974
    Location:312 → 403
    tRNA_int_endo; tRNA intron endonuclease, catalytic C-terminal domain
    pfam02778
    Location:268 → 302
    tRNA_int_endo_N; tRNA intron endonuclease, N-terminal domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007122.7 Reference GRCz11 Primary Assembly

    Range
    588109..601821 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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