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    LOC4334742 vacuolar protein sorting-associated protein 9A [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334742, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4334742
    Gene description
    vacuolar protein sorting-associated protein 9A
    Locus tag
    OSNPB_030842700
    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 leaves before flowering (RPKM 16.9), flowers (RPKM 16.8) and 6 other tissues See more
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    Genomic context

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    See LOC4334742 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (35424462..35428046)

    Chromosome 3 - NC_029258.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC9269089 Neighboring gene uncharacterized LOC4334740 Neighboring gene 11-beta-hydroxysteroid dehydrogenase-like 5 Neighboring gene transfer RNA serine (anticodon AGA)

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029258.1 Chromosome 3 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 guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables small GTPase binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in endocytic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vacuolar protein sorting-associated protein 9A
    Names
    Os03g0842700

    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_029258.1 Reference IRGSP-1.0 Primary Assembly

      Range
      35424462..35428046
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015774212.2 → XP_015629698.1  vacuolar protein sorting-associated protein 9A

      UniProtKB/TrEMBL
      B8AN76, B9F7I9
      Conserved Domains (2) summary
      pfam02204
      Location:140 → 245
      VPS9; Vacuolar sorting protein 9 (VPS9) domain
      pfam18151
      Location:31 → 95
      DUF5601; Domain of unknown function (DUF5601)

    RNA

    1. XR_001544313.2 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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