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    LOC4338598 vesicle-associated protein 2-2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4338598, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4338598
    Gene description
    vesicle-associated protein 2-2
    Locus tag
    OSNPB_050373000
    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
    Broad expression in roots before flowering (RPKM 30.1), flowers (RPKM 28.5) and 6 other tissues See more
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    Genomic context

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    See LOC4338598 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (18065691..18071291, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (17965066..17970720, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112939046 Neighboring gene uncharacterized LOC4338597 Neighboring gene protein BONZAI 3 Neighboring gene RNA-binding protein BRN1

    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

    Process Evidence Code Pubs
    involved_in endoplasmic reticulum membrane organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in endoplasmic reticulum-plasma membrane tethering IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vesicle-associated protein 2-2
    Names
    Os05g0373000

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      18065691..18071291 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785291.3 → XP_015640777.1  vesicle-associated protein 2-2 isoform X1

      UniProtKB/TrEMBL
      A0A0P0WLI5, B8AXT6, Q6I5Q0
      Conserved Domains (1) summary
      pfam00635
      Location:8 → 114
      Motile_Sperm; MSP (Major sperm protein) domain

    2. XM_026025697.2 → XP_025881482.1  vesicle-associated protein 2-2 isoform X2

      UniProtKB/TrEMBL
      B8AXT6
    Nucleotide Protein
    Heading Accession and Version

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