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    LOC4341494 vacuolar protein sorting-associated protein 32 homolog 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4341494, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4341494
    Gene description
    vacuolar protein sorting-associated protein 32 homolog 2
    Locus tag
    OSNPB_060608500
    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 after flowering (RPKM 74.5), roots after flowering (RPKM 67.3) and 6 other tissues See more
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    Genomic context

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    See LOC4341494 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (25080365..25085050)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (24218366..24223254)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene 110 kDa U5 small nuclear ribonucleoprotein component CLO Neighboring gene uncharacterized LOC9270950 Neighboring gene protein transport protein SFT2 Neighboring gene fructose-bisphosphate aldolase 5, cytosolic Neighboring gene E3 ubiquitin-protein ligase RGLG2

    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 late endosome to vacuole transport via multivesicular body sorting pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in vesicle budding from membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of ESCRT III complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytoplasmic side of plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in multivesicular body IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vacuolar protein sorting-associated protein 32 homolog 2
    Names
    Os06g0608500
    P0556B08.16
    SNF7 protein-like

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      25080365..25085050
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015789049.3 → XP_015644535.1  vacuolar protein sorting-associated protein 32 homolog 2

      UniProtKB/TrEMBL
      A2YEW4, A3BDG1, Q69V59
      Conserved Domains (1) summary
      pfam03357
      Location:23 → 167
      Snf7

    2. XM_015789050.2 → XP_015644536.1  vacuolar protein sorting-associated protein 32 homolog 2

      UniProtKB/TrEMBL
      A2YEW4, A3BDG1, Q69V59
      Conserved Domains (1) summary
      pfam03357
      Location:23 → 167
      Snf7
    Nucleotide Protein
    Heading Accession and Version

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