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    LOC4325589 tryptophan aminotransferase-related protein 3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325589, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4325589
    Gene description
    tryptophan aminotransferase-related protein 3
    Locus tag
    OSNPB_010717700
    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
    P0480C01.8
    Expression
    Broad expression in leaves after flowering (RPKM 188.6), roots after flowering (RPKM 133.5) and 5 other tissues See more
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    Genomic context

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    See LOC4325589 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (30490945..30495430)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (29894012..29898463)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene zinc finger A20 and AN1 domain-containing stress-associated protein 2-like Neighboring gene transfer RNA glycine (anticodon CCC) Neighboring gene zinc finger A20 and AN1 domain-containing stress-associated protein 2-like Neighboring gene transfer RNA glycine (anticodon CCC)

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. 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
    2. 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
    3. 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 carbon-sulfur lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in amino acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tryptophan aminotransferase-related protein 3
    Names
    Alliin lyase precursor-like
    Os01g0717700
    P0683B11.33

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      30490945..30495430
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015767007.3 → XP_015622493.1  tryptophan aminotransferase-related protein 3

      UniProtKB/TrEMBL
      A0A0P0V7H9, A0A8J8YAK9, A2WUH2, B9EZ60, Q942G1
      Conserved Domains (2) summary
      pfam04863
      Location:54 → 109
      EGF_alliinase; Alliinase EGF-like domain
      pfam04864
      Location:111 → 469
      Alliinase_C; Allinase
    Nucleotide Protein
    Heading Accession and Version

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