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    LOC4339861 protein transport protein SEC16A homolog [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339861, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4339861
    Gene description
    protein transport protein SEC16A homolog
    Locus tag
    OSNPB_060105600
    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 roots after flowering (RPKM 15.8), flowers (RPKM 14.8) and 6 other tissues See more
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    Genomic context

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    See LOC4339861 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (543209..550082, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (387210..394145, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial Neighboring gene protein arginine N-methyltransferase 7-like Neighboring gene WAT1-related protein At5g47470 Neighboring gene protein REVEILLE 6

    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. 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 COPII vesicle coating IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in Golgi organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in protein localization to endoplasmic reticulum exit site IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in ER to Golgi transport vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in endoplasmic reticulum exit site IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein transport protein SEC16A homolog
    Names
    Os06g0105600
    P0644B06.26
    protein transport protein SEC16B 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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      543209..550082 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788058.3 → XP_015643544.1  protein transport protein SEC16A homolog

      UniProtKB/TrEMBL
      B8B1H9, B9FR36
      Conserved Domains (3) summary
      cd09233
      Location:695 → 1064
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      pfam12932
      Location:623 → 731
      Sec16; Vesicle coat trafficking protein Sec16 mid-region
      NF033849
      Location:334 → 554
      ser_rich_anae_1; serine-rich protein
    Nucleotide Protein
    Heading Accession and Version

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