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Kars1 lysyl-tRNA synthetase 1 [ Mus musculus (house mouse) ]

Gene ID: 85305, updated on 1-Mar-2024

Summary

Official Symbol
Kars1provided by MGI
Official Full Name
lysyl-tRNA synthetase 1provided by MGI
Primary source
MGI:MGI:1934754
See related
Ensembl:ENSMUSG00000031948 AllianceGenome:MGI:1934754
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
Kars; LysRS; D8Wsu108e; mKIAA0070; D8Ertd698e
Summary
Enables scaffold protein binding activity. Predicted to be involved in several processes, including ERK1 and ERK2 cascade; diadenosine tetraphosphate biosynthetic process; and lysyl-tRNA aminoacylation. Predicted to act upstream of or within translation. Located in mitochondrion. Part of aminoacyl-tRNA synthetase multienzyme complex. Is expressed in several structures, including alimentary system; central nervous system; cranium; genitourinary system; and sensory organ. 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, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 43.4), placenta adult (RPKM 35.9) and 28 other tissues See more
Orthologs
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Genomic context

See Kars1 in Genome Data Viewer
Location:
8 E1; 8 58.27 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (112720071..112737986, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (111993439..112011354, complement)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_22729 Neighboring gene GABA type A receptor associated protein like 2 Neighboring gene adenosine deaminase, tRNA-specific 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:114500469-114500652 Neighboring gene STARR-positive B cell enhancer ABC_E6687 Neighboring gene STARR-positive B cell enhancer ABC_E1376 Neighboring gene telomeric repeat binding factor 2, interacting protein Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene Neighboring gene predicted gene 9564

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2) 
  • Endonuclease-mediated (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP adenylyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables ATP adenylyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
enables ATP binding ISO
Inferred from Sequence Orthology
more info
 
enables amino acid binding ISO
Inferred from Sequence Orthology
more info
 
enables aminoacyl-tRNA ligase activity IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables scaffold protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables tRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables tRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transferase activity 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
 
part_of aminoacyl-tRNA synthetase multienzyme complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of aminoacyl-tRNA synthetase multienzyme complex ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in mitochondrion HDA PubMed 
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
lysine--tRNA ligase
NP_001124340.1
NP_001273313.1
NP_001350358.1
NP_001350359.1
NP_444322.1

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_001130868.2NP_001124340.1  lysine--tRNA ligase isoform 1

    See identical proteins and their annotated locations for NP_001124340.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 4. Variants 1, 3, 4, and 5 all encode the same isoform (1).
    Source sequence(s)
    AC114648, AK167693, W77297
    Consensus CDS
    CCDS52677.1
    UniProtKB/TrEMBL
    Q8CFK5, Q8R2P8
    Related
    ENSMUSP00000090808.6, ENSMUST00000093120.13
    Conserved Domains (1) summary
    PLN02502
    Location:42604
    PLN02502; lysyl-tRNA synthetase
  2. NM_001286384.1NP_001273313.1  lysine--tRNA ligase isoform 1

    See identical proteins and their annotated locations for NP_001273313.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 4. Variants 1, 3, 4, and 5 all encode the same isoform (1).
    Source sequence(s)
    AC114648, AK167693, W77297
    Consensus CDS
    CCDS52677.1
    UniProtKB/TrEMBL
    Q8CFK5, Q8R2P8
    Related
    ENSMUSP00000126268.2, ENSMUST00000164470.3
    Conserved Domains (1) summary
    PLN02502
    Location:42604
    PLN02502; lysyl-tRNA synthetase
  3. NM_001363429.1NP_001350358.1  lysine--tRNA ligase isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 4. Variants 1, 3, 4, and 5 all encode the same isoform (1).
    Source sequence(s)
    AC114648
    Consensus CDS
    CCDS52677.1
    UniProtKB/TrEMBL
    Q8CFK5, Q8R2P8
    Conserved Domains (1) summary
    PLN02502
    Location:42604
    PLN02502; lysyl-tRNA synthetase
  4. NM_001363430.1NP_001350359.1  lysine--tRNA ligase isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) represents the longest transcript and encodes the longer isoform (1). Variants 1, 3, 4, and 5 all encode the same isoform (1).
    Source sequence(s)
    AC114648
    Consensus CDS
    CCDS52677.1
    UniProtKB/TrEMBL
    Q8CFK5, Q8R2P8
    Conserved Domains (1) summary
    PLN02502
    Location:42604
    PLN02502; lysyl-tRNA synthetase
  5. NM_053092.3NP_444322.1  lysine--tRNA ligase isoform 2

    See identical proteins and their annotated locations for NP_444322.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon compared to variant 4. The resulting isoform (2) is shorter compared to isoform 1.
    Source sequence(s)
    AC114648, AK167693, W77297
    Consensus CDS
    CCDS40481.1
    UniProtKB/Swiss-Prot
    Q99MN1
    UniProtKB/TrEMBL
    Q3TIV6, Q8C292
    Related
    ENSMUSP00000034426.7, ENSMUST00000034426.14
    Conserved Domains (4) summary
    PLN02502
    Location:12575
    PLN02502; lysyl-tRNA synthetase
    cd00775
    Location:235573
    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:123232
    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. ...
    pfam08496
    Location:1445
    Peptidase_S49_N; Peptidase family S49 N-terminal

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_000074.7 Reference GRCm39 C57BL/6J

    Range
    112720071..112737986 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)