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    LOC4329228 vacuolar protein sorting-associated protein 45 homolog [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329228, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4329228
    Gene description
    vacuolar protein sorting-associated protein 45 homolog
    Locus tag
    OSNPB_020437800
    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
    OJ1287_H05.17-1; OJ1287_H05.17-2
    Expression
    Ubiquitous expression in roots after flowering (RPKM 29.1), leaves after flowering (RPKM 27.0) and 6 other tissues See more
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    Genomic context

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    See LOC4329228 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (14435094..14444666, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (13977650..13987425, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136355439 Neighboring gene SNAP25 homologous protein SNAP32-like Neighboring gene uncharacterized LOC9272581 Neighboring gene uncharacterized LOC136355218

    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

    Process Evidence Code Pubs
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vacuolar protein sorting-associated protein 45 homolog
    Names
    Os02g0437800
    putative vacuolar protein sorting homolog

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      14435094..14444666 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770934.3 → XP_015626420.1  vacuolar protein sorting-associated protein 45 homolog

      UniProtKB/TrEMBL
      A0A0P0VIH2, A0A0P0VII7, B8AH63, B9F5G2, Q6ZGF2
      Conserved Domains (1) summary
      pfam00995
      Location:22 → 547
      Sec1; Sec1 family

    RNA

    1. XR_001543631.3 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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