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    YARS1 tyrosyl-tRNA synthetase 1 [ Homo sapiens (human) ]

    Gene ID: 8565, updated on 5-May-2024

    Summary

    Official Symbol
    YARS1provided by HGNC
    Official Full Name
    tyrosyl-tRNA synthetase 1provided by HGNC
    Primary source
    HGNC:HGNC:12840
    See related
    Ensembl:ENSG00000134684 MIM:603623; AllianceGenome:HGNC:12840
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    YRS; YTS; YARS; TYRRS; CMTDIC; IMNEPD2
    Summary
    Aminoacyl-tRNA synthetases catalyze the aminoacylation of tRNA by their cognate amino acid. Because of their central role in linking amino acids with nucleotide triplets contained in tRNAs, aminoacyl-tRNA synthetases are thought to be among the first proteins that appeared in evolution. Tyrosyl-tRNA synthetase belongs to the class I tRNA synthetase family. Cytokine activities have also been observed for the human tyrosyl-tRNA synthetase, after it is split into two parts, an N-terminal fragment that harbors the catalytic site and a C-terminal fragment found only in the mammalian enzyme. The N-terminal fragment is an interleukin-8-like cytokine, whereas the released C-terminal fragment is an EMAP II-like cytokine. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 25.7), brain (RPKM 24.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See YARS1 in Genome Data Viewer
    Location:
    1p35.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (32775239..32817358, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (32635023..32677140, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (33240840..33282959, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene RB binding protein 4, chromatin remodeling factor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33154443-33154943 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33160284-33161022 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33167839-33168604 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33168605-33169370 Neighboring gene syncoilin, intermediate filament protein Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 607 Neighboring gene Sharpr-MPRA regulatory region 2185 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33183271-33184026 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33189892-33190720 Neighboring gene Sharpr-MPRA regulatory region 8469 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33200787-33201312 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33201837-33202361 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33202362-33202885 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 608 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:33219766-33220279 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33225004-33225886 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33225887-33226770 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:33227405-33227625 Neighboring gene NHS like 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33231243-33232135 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33232136-33233029 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33235076-33235991 Neighboring gene Sharpr-MPRA regulatory region 15696 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6796 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:33251929-33253128 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 697 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33269619-33270293 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33270294-33270967 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33275934-33276570 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33276571-33277206 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33282071-33282572 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33282573-33283072 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6822 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 699 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 700 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 701 Neighboring gene S100P binding protein Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6850 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33333351-33333852 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33338281-33339137 Neighboring gene uncharacterized LOC105378631 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6918 Neighboring gene fibronectin type III domain containing 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of tyrosyl-tRNA synthetase (YARS) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of tyrosyl-tRNA synthetase in T-cell lines PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding HDA PubMed 
    enables interleukin-8 receptor binding TAS
    Traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables small molecule binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables tRNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables tyrosine-tRNA ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables tyrosine-tRNA ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in apoptotic process TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in response to starvation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in tyrosyl-tRNA aminoacylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in extracellular space TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    tyrosine--tRNA ligase, cytoplasmic
    Names
    tyrosine tRNA ligase 1, cytoplasmic
    tyrosyl--tRNA ligase
    tyrosyl-tRNA synthetase, cytoplasmic
    NP_003671.1
    XP_011540649.1
    XP_054195307.1

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_008408.1 RefSeqGene

      Range
      5001..47794
      Download
      GenBank, FASTA, Sequence Viewer (Graphics), LRG_273

    mRNA and Protein(s)

    1. NM_003680.4NP_003671.1  tyrosine--tRNA ligase, cytoplasmic

      See identical proteins and their annotated locations for NP_003671.1

      Status: REVIEWED

      Source sequence(s)
      AC114489, AC114493
      Consensus CDS
      CCDS368.1
      UniProtKB/Swiss-Prot
      B3KWK4, D3DPQ4, O43276, P54577, Q53EN1
      UniProtKB/TrEMBL
      A0A0S2Z4R1, A0A6Q8PFX2
      Related
      ENSP00000362576.4, ENST00000373477.9
      Conserved Domains (2) summary
      cl00015
      Location:8328
      nt_trans; nucleotidyl transferase superfamily
      cl26127
      Location:327528
      PRK12267; methionyl-tRNA synthetase; Reviewed

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      32775239..32817358 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011542347.3XP_011540649.1  tyrosine--tRNA ligase, cytoplasmic isoform X1

      See identical proteins and their annotated locations for XP_011540649.1

      Conserved Domains (2) summary
      cd02799
      Location:153258
      tRNA_bind_EMAP-II_like; tRNA-binding-domain-containing EMAP2-like proteins. This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae ...
      cl00015
      Location:4128
      nt_trans; nucleotidyl transferase superfamily

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      32635023..32677140 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054339332.1XP_054195307.1  tyrosine--tRNA ligase, cytoplasmic isoform X1