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    LOC4339341 periodic tryptophan protein 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339341, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4339341
    Gene description
    periodic tryptophan protein 2
    Locus tag
    OSNPB_050519500
    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 flower buds (RPKM 16.2), leaves before flowering (RPKM 13.5) and 6 other tissues See more
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    Genomic context

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    See LOC4339341 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (25788787..25793632, complement)

    Chromosome 5 - NC_029260.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4339339 Neighboring gene vesicle-fusing ATPase Neighboring gene protein DJ-1 homolog C Neighboring gene chaperone protein ClpB1-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029260.1 Chromosome 5 Reference IRGSP-1.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in ribosomal small subunit assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Pwp2p-containing subcomplex of 90S preribosome 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
    periodic tryptophan protein 2
    Names
    Os05g0519500
    periodic tryptophan protein 2 homolog

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

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

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029260.1 Reference IRGSP-1.0 Primary Assembly

      Range
      25788787..25793632 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785085.2 → XP_015640571.1  periodic tryptophan protein 2

      UniProtKB/TrEMBL
      A2Y6L2, B9FGU0, Q0DGP5
      Conserved Domains (4) summary
      cd00200
      Location:326 → 628
      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:337 → 375
      7WD40; WD40 repeat [structural motif]
      pfam04003
      Location:778 → 883
      Utp12; Dip2/Utp12 Family
      cl29593
      Location:98 → 447
      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 ...

    2. XM_015785084.1 → XP_015640570.1  periodic tryptophan protein 2

      UniProtKB/TrEMBL
      A2Y6L2, B9FGU0, Q0DGP5
      Conserved Domains (4) summary
      cd00200
      Location:326 → 628
      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:337 → 375
      7WD40; WD40 repeat [structural motif]
      pfam04003
      Location:778 → 883
      Utp12; Dip2/Utp12 Family
      cl29593
      Location:98 → 447
      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 ...
    Nucleotide Protein
    Heading Accession and Version

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