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    LOC4336833 protein TORMOZ EMBRYO DEFECTIVE [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4336833, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4336833
    Gene description
    protein TORMOZ EMBRYO DEFECTIVE
    Locus tag
    OSNPB_040592700
    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
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    Genomic context

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    See LOC4336833 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (30487632..30494329, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (29981590..29990197, complement)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136355930 Neighboring gene uncharacterized membrane protein At4g09580 Neighboring gene transcription factor MYB41 Neighboring gene norbelladine synthase

    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. 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 U3 snoRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of 90S preribosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of small-subunit processome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein TORMOZ EMBRYO DEFECTIVE
    Names
    Os04g0592700
    WD domain, G-beta repeat domain-containing protein
    transducin beta-like protein 3

    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
      30487632..30494329 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026025010.2 → XP_025880795.1  protein TORMOZ EMBRYO DEFECTIVE isoform X1

      UniProtKB/TrEMBL
      A0A0P0WE53, A0A5S6RC76, Q01HH1, Q0JAK5, Q5VSV5
      Conserved Domains (3) summary
      cd00200
      Location:358 → 660
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:413 → 452
      7WD40; WD40 repeat [structural motif]
      pfam08625
      Location:683 → 816
      Utp13; Utp13 specific WD40 associated domain

    2. XM_066310002.1 → XP_066166099.1  protein TORMOZ EMBRYO DEFECTIVE isoform X2

    3. XM_015781672.3 → XP_015637158.1  protein TORMOZ EMBRYO DEFECTIVE isoform X1

      UniProtKB/TrEMBL
      A0A0P0WE53, A0A5S6RC76, Q01HH1, Q0JAK5, Q5VSV5
      Conserved Domains (3) summary
      cd00200
      Location:358 → 660
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:413 → 452
      7WD40; WD40 repeat [structural motif]
      pfam08625
      Location:683 → 816
      Utp13; Utp13 specific WD40 associated domain
    Nucleotide Protein
    Heading Accession and Version

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