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kars1 lysyl-tRNA synthetase 1 [ Danio rerio (zebrafish) ]

Gene ID: 280647, updated on 2-Nov-2024

Summary

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Official Symbol
kars1provided by ZNC
Official Full Name
lysyl-tRNA synthetase 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-021115-8
See related
Ensembl:ENSDARG00000103799 AllianceGenome:ZFIN:ZDB-GENE-021115-8
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
kars; cb530; zgc:92483; wu:fa16h02
Summary
Predicted to enable ATP:ADP adenylyltransferase activity; lysine-tRNA ligase activity; and tRNA binding activity. Predicted to be involved in several processes, including diadenosine tetraphosphate biosynthetic process; lysyl-tRNA aminoacylation; and positive regulation of macrophage activation. Predicted to act upstream of or within tRNA aminoacylation for protein translation. Predicted to be part of aminoacyl-tRNA synthetase multienzyme complex. Predicted to be active in mitochondrion. Is expressed in several structures, including alar plate midbrain region; digestive system; immature eye; musculature system; and nervous system. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease recessive intermediate B and autosomal recessive nonsyndromic deafness 89. Orthologous to human KARS1 (lysyl-tRNA synthetase 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See kars1 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (67429430..67448884)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (67206068..67225532)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene polycystic kidney disease 1 like 2b Neighboring gene proteasome 26S subunit, non-ATPase 7 Neighboring gene nuclear factor of activated T cells 5b Neighboring gene small nucleolar RNA MBII-202 Neighboring gene glycine cleavage system protein H (aminomethyl carrier), b Neighboring gene ribosomal protein L13

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. Mutations in KARS, encoding lysyl-tRNA synthetase, cause autosomal-recessive nonsyndromic hearing impairment DFNB89. Santos-Cortez RL, et al. Am J Hum Genet, 2013 Jul 11. PMID 23768514, Free PMC Article
  2. Deletion of Mtu1 (Trmu) in zebrafish revealed the essential role of tRNA modification in mitochondrial biogenesis and hearing function. Zhang Q, et al. Nucleic Acids Res, 2018 Nov 16. PMID 30137487, Free PMC Article
  3. Deletion of Gtpbp3 in zebrafish revealed the hypertrophic cardiomyopathy manifested by aberrant mitochondrial tRNA metabolism. Chen D, et al. Nucleic Acids Res, 2019 Jun 4. PMID 30916346, Free PMC Article
  4. Slc38a9 Deficiency Induces Apoptosis and Metabolic Dysregulation and Leads to Premature Death in Zebrafish. Wu X, et al. Int J Mol Sci, 2022 Apr 11. PMID 35457018, Free PMC Article
  5. XBP-1, a key regulator of unfolded protein response, activates transcription of IGF1 and Akt phosphorylation in zebrafish embryonic cell line. Hu MC, et al. Biochem Biophys Res Commun, 2007 Aug 3. PMID 17560942

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP:ADP adenylyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables aminoacyl-tRNA ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables lysine-tRNA ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables lysine-tRNA ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables tRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in basophil activation involved in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in diadenosine tetraphosphate biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in lysyl-tRNA aminoacylation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within lysyl-tRNA aminoacylation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of macrophage activation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within tRNA aminoacylation for protein translation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of aminoacyl-tRNA synthetase multienzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
lysine--tRNA ligase
NP_001002386.1
NP_001315435.1

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_001002386.2 → NP_001002386.1  lysine--tRNA ligase isoform 1

    See identical proteins and their annotated locations for NP_001002386.1

    Status: VALIDATED

    Source sequence(s)
    BC076028, CABZ01060768, CU651676
    UniProtKB/TrEMBL
    A0A8M1N092, Q6DHE6
    Related
    ENSDARP00000136176.1, ENSDART00000162553.2
    Conserved Domains (3) summary
    PLN02502
    Location:34 → 590
    PLN02502; lysyl-tRNA synthetase
    cd00775
    Location:250 → 588
    LysRS_core; Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three ...
    cd04322
    Location:139 → 247
    LysRS_N; LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. ...

  2. NM_001328506.1 → NP_001315435.1  lysine--tRNA ligase isoform 2

    Status: VALIDATED

    Source sequence(s)
    BC076028, CABZ01060768, CU651676
    UniProtKB/TrEMBL
    A0A0R4IC11, A0A8M1P3X7
    Related
    ENSDARP00000144447.1, ENSDART00000178646.2
    Conserved Domains (3) summary
    PLN02502
    Location:9 → 565
    PLN02502; lysyl-tRNA synthetase
    cd00775
    Location:225 → 563
    LysRS_core; Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three ...
    cd04322
    Location:114 → 222
    LysRS_N; LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. ...

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_007118.7 Reference GRCz11 Primary Assembly

    Range
    67429430..67448884
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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