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    LOC4339166 vacuolar protein sorting 38 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339166, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4339166
    Gene description
    vacuolar protein sorting 38
    Locus tag
    OSNPB_050490500
    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
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    Genomic context

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    See LOC4339166 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (24222216..24224899, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (24107390..24110163, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene F-box protein At4g18380 Neighboring gene uncharacterized LOC4339165 Neighboring gene transcription factor GAMYB Neighboring gene histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    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. 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

    Function Evidence Code Pubs
    enables SNARE binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in SNARE complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in lytic vacuole IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vacuolar protein sorting 38
    Names
    Os05g0490500

    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
      24222216..24224899 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782551.3 → XP_015638037.1  vacuolar protein sorting 38 isoform X6

      Conserved Domains (1) summary
      TIGR02168
      Location:29 → 139
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    2. XM_066310777.1 → XP_066166874.1  vacuolar protein sorting 38 isoform X8

    3. XM_015782550.3 → XP_015638036.1  vacuolar protein sorting 38 isoform X5

      Conserved Domains (1) summary
      TIGR02168
      Location:29 → 139
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    4. XM_015782552.3 → XP_015638038.1  vacuolar protein sorting 38 isoform X7

      Conserved Domains (1) summary
      TIGR02168
      Location:29 → 139
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    5. XM_066310775.1 → XP_066166872.1  vacuolar protein sorting 38 isoform X3

    6. XM_066310776.1 → XP_066166873.1  vacuolar protein sorting 38 isoform X4

    7. XM_015782549.3 → XP_015638035.1  vacuolar protein sorting 38 isoform X2

      UniProtKB/TrEMBL
      B8AZI0
      Conserved Domains (1) summary
      TIGR02168
      Location:29 → 139
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    8. XM_015782548.3 → XP_015638034.1  vacuolar protein sorting 38 isoform X1

      UniProtKB/TrEMBL
      B8AZI0
      Conserved Domains (1) summary
      TIGR02168
      Location:29 → 139
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    Nucleotide Protein
    Heading Accession and Version

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