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    AT5G12950 proline-tRNA ligase (DUF1680) [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831135, updated on 15-Feb-2024

    Summary

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    Gene symbol
    AT5G12950
    Gene description
    proline-tRNA ligase (DUF1680)
    Primary source
    Araport:AT5G12950
    Locus tag
    AT5G12950
    See related
    TAIR:AT5G12950
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    T24H18.120; T24H18_120
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    Genomic context

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    See AT5G12950 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    12
    Sequence:
    Chromosome: 5; NC_003076.8 (4092519..4097059)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene inactive rhomboid protein Neighboring gene Leucine-rich repeat (LRR) family protein Neighboring gene proline-tRNA ligase (DUF1680) Neighboring gene Calcium-dependent lipid-binding (CaLB domain) plant phosphoribosyltransferase family protein Neighboring gene Cell differentiation, Rcd1-like protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Neofunctionalization of tandem duplicate genes encoding putative β-L-arabinofuranosidases in Arabidopsis. Tao F, et al. Plant Physiol, 2023 Aug 3. PMID 36932689
    2. The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins. Carter C, et al. Plant Cell, 2004 Dec. PMID 15539469, Free PMC Article
    3. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714
    4. Multi-omics network-based functional annotation of unknown Arabidopsis genes. Depuydt T, et al. Plant J, 2021 Nov. PMID 34562334

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_121298.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables beta-L-arabinofuranosidase activity RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type vacuole HDA PubMed 

    General protein information

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    Preferred Names
    proline-tRNA ligase (DUF1680)
    NP_196799.1
    • FUNCTIONS IN: catalytic activity; LOCATED IN: vacuole, plant-type cell wall; EXPRESSED IN: stem, male gametophyte, guard cell, pollen tube; EXPRESSED DURING: L mature pollen stage, M germinated pollen stage; CONTAINS InterPro DOMAIN/s: Protein of unknown function DUF1680 (InterPro:IPR012878), Six-hairpin glycosidase-like (InterPro:IPR008928); BEST Arabidopsis thaliana protein match is: Putative glycosyl hydrolase of unknown function (DUF1680) (TAIR:AT5G12960.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      4092519..4097059
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121298.3 → NP_196799.1  proline-tRNA ligase (DUF1680) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196799.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9Y4F9, Q9LXU4
      Conserved Domains (2) summary
      COG3533
      Location:109 → 641
      COG3533; Uncharacterized conserved protein, DUF1680 family [Function unknown]
      pfam07944
      Location:111 → 635
      Glyco_hydro_127; Beta-L-arabinofuranosidase, GH127
    Nucleotide Protein
    Heading Accession and Version

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