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    LOC4337445 tRNA-specific adenosine deaminase TAD1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337445, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4337445
    Gene description
    tRNA-specific adenosine deaminase TAD1
    Locus tag
    OSNPB_040683500
    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
    Expression
    Ubiquitous expression in roots after flowering (RPKM 3.2), flower buds (RPKM 3.1) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (35413004..35418316)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (34892925..34899220)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene pre-mRNA cleavage factor Im 25 kDa subunit 2 Neighboring gene nuclear transcription factor Y subunit C-2 Neighboring gene probable LRR receptor-like serine/threonine-protein kinase At1g63430 Neighboring gene oxalate--CoA ligase

    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables double-stranded RNA adenosine deaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables double-stranded RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables tRNA-specific adenosine deaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in adenosine to inosine editing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tRNA-specific adenosine deaminase TAD1
    Names
    Os04g0683500
    tRNA-specific adenosine deaminase 1

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      35413004..35418316
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066309506.1 → XP_066165603.1  tRNA-specific adenosine deaminase TAD1 isoform X5

      UniProtKB/TrEMBL
      A0A0P0WGK1, Q7XPV6

    2. XM_015778475.3 → XP_015633961.1  tRNA-specific adenosine deaminase TAD1 isoform X2

      UniProtKB/TrEMBL
      A0A0P0WGK1, Q7XPV6
      Conserved Domains (1) summary
      cl02661
      Location:71 → 381
      A_deamin; Adenosine-deaminase (editase) domain

    3. XM_015778474.3 → XP_015633960.1  tRNA-specific adenosine deaminase TAD1 isoform X1

      Conserved Domains (1) summary
      cl02661
      Location:71 → 357
      A_deamin; Adenosine-deaminase (editase) domain

    4. XM_066309505.1 → XP_066165602.1  tRNA-specific adenosine deaminase TAD1 isoform X3

      UniProtKB/TrEMBL
      A3AYS2

    5. XM_015778478.3 → XP_015633964.1  tRNA-specific adenosine deaminase TAD1 isoform X4

      UniProtKB/TrEMBL
      A0A0P0WGK1, Q7XPV6
      Conserved Domains (1) summary
      cl02661
      Location:71 → 337
      A_deamin; Adenosine-deaminase (editase) domain

    6. XM_026025199.2 → XP_025880984.1  tRNA-specific adenosine deaminase TAD1 isoform X6

      UniProtKB/TrEMBL
      A0A0P0WGK1, Q7XPV6
      Conserved Domains (1) summary
      cl02661
      Location:71 → 381
      A_deamin; Adenosine-deaminase (editase) domain
    Nucleotide Protein
    Heading Accession and Version

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