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    LOC9270427 SEC12-like protein 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9270427, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC9270427
    Gene description
    SEC12-like protein 1
    Locus tag
    OSNPB_030799900
    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 12.3), flower buds (RPKM 5.1) and 6 other tissues See more
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    Genomic context

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    See LOC9270427 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (33346076..33350149)

    Chromosome 3 - NC_029258.1Genomic Context describing neighboring genes Neighboring gene chromatin remodeling protein EBS Neighboring gene probable GTP-binding protein OBGC2 Neighboring gene uncharacterized LOC4334447 Neighboring gene cactin

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029258.1 Chromosome 3 Reference IRGSP-1.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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 GTPase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein secretion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of COPII vesicle coating 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 

    General protein information

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    Preferred Names
    SEC12-like protein 1
    Names
    Os03g0799900

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029258.1 Reference IRGSP-1.0 Primary Assembly

      Range
      33346076..33350149
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015772655.2 → XP_015628141.1  SEC12-like protein 1 isoform X1

      UniProtKB/TrEMBL
      B8ALC7, Q851Q9
      Conserved Domains (2) summary
      COG2319
      Location:60 → 313
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:75 → 110
      7WD40; WD40 repeat [structural motif]

    2. XM_015772656.2 → XP_015628142.1  SEC12-like protein 1 isoform X2

      UniProtKB/TrEMBL
      B8ALC7, B9F6H7
      Conserved Domains (3) summary
      COG2319
      Location:60 → 313
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:75 → 110
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:66 → 314
      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_015772657.2 → XP_015628143.1  SEC12-like protein 1 isoform X3

      UniProtKB/TrEMBL
      B8ALC7
      Conserved Domains (3) summary
      COG2319
      Location:60 → 267
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:75 → 110
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:123 → 215
      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 ...

    RNA

    1. XR_001544078.2 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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