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    LOC4328228 protein transport protein SEC13 homolog B [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4328228, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4328228
    Gene description
    protein transport protein SEC13 homolog B
    Locus tag
    OSNPB_020135800
    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
    Sec13p
    Expression
    Ubiquitous expression in flower buds (RPKM 30.6), flowers (RPKM 29.9) and 6 other tissues See more
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    Genomic context

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    See LOC4328228 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (1910618..1912653)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (1902990..1905082)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4328226 Neighboring gene rDNA transcriptional regulator pol5 Neighboring gene protein PTST, chloroplastic Neighboring gene protein NLP3-like

    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

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in COPII-coated vesicle budding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in protein import into nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of COPII vesicle coat IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of nuclear pore outer ring IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein transport protein SEC13 homolog B
    Names
    OSJNBa0081C13.10
    Os02g0135800

    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
      1910618..1912653
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026023153.2 → XP_025878938.1  protein transport protein SEC13 homolog B

      UniProtKB/TrEMBL
      A2X0M6, A3A2X0, Q0E454, Q6Z0Y9, Q8W403
      Conserved Domains (2) summary
      sd00039
      Location:15 → 53
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:8 → 289
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. XM_015767121.3 → XP_015622607.1  protein transport protein SEC13 homolog B

      UniProtKB/TrEMBL
      A2X0M6, A3A2X0, Q0E454, Q6Z0Y9, Q8W403
      Conserved Domains (2) summary
      sd00039
      Location:15 → 53
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:8 → 289
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    3. XM_015767120.3 → XP_015622606.1  protein transport protein SEC13 homolog B

      UniProtKB/TrEMBL
      A2X0M6, A3A2X0, Q0E454, Q6Z0Y9, Q8W403
      Conserved Domains (2) summary
      sd00039
      Location:15 → 53
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:8 → 289
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    Nucleotide Protein
    Heading Accession and Version

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