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    LOC4339847 glycine--tRNA ligase, chloroplastic/mitochondrial 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339847, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4339847
    Gene description
    glycine--tRNA ligase, chloroplastic/mitochondrial 2
    Locus tag
    OSNPB_060103600
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    RA1
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    Genomic context

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    See LOC4339847 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (389750..400597)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (233781..244629)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized protein At4g28440 Neighboring gene peroxisomal acyl-coenzyme A oxidase 1 Neighboring gene glutaminyl-peptide cyclotransferase Neighboring gene membrane protein of ER body-like protein Neighboring gene probable methyltransferase PMT17

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Rice albino 1, encoding a glycyl-tRNA synthetase, is involved in chloroplast development and establishment of the plastidic ribosome system in rice. Zheng H, et al. Plant Physiol Biochem, 2019 Jun. PMID 31015088
    2. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables arginine-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables glycine-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in arginyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in glycyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast stroma IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    glycine--tRNA ligase, chloroplastic/mitochondrial 2
    Names
    OSJNBa0075G19.30-1
    Os06g0103600
    putative aminoacyl-t-RNA synthetase
    rice albino1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      389750..400597
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015787542.3 → XP_015643028.1  glycine--tRNA ligase, chloroplastic/mitochondrial 2 isoform X1

      UniProtKB/TrEMBL
      A0A0P0WRD1, B8B198, Q0DFB6, Q5VRH2
      Conserved Domains (4) summary
      PRK14908
      Location:68 → 1065
      PRK14908; glycyl-tRNA synthetase; Provisional
      cd00733
      Location:73 → 351
      GlyRS_alpha_core; Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the ...
      pfam02092
      Location:386 → 929
      tRNA_synt_2f; Glycyl-tRNA synthetase beta subunit
      cl12020
      Location:962 → 1054
      Anticodon_Ia_like; Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains

    2. XM_015787544.3 → XP_015643030.1  glycine--tRNA ligase, chloroplastic/mitochondrial 2 isoform X2

      UniProtKB/TrEMBL
      B8B198
      Conserved Domains (4) summary
      PRK14908
      Location:68 → 1044
      PRK14908; glycyl-tRNA synthetase; Provisional
      cd00733
      Location:73 → 351
      GlyRS_alpha_core; Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the ...
      pfam02092
      Location:386 → 908
      tRNA_synt_2f; Glycyl-tRNA synthetase beta subunit
      cl12020
      Location:941 → 1033
      Anticodon_Ia_like; Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains
    Nucleotide Protein
    Heading Accession and Version

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