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    LOC4347715 synaptotagmin-2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4347715, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4347715
    Gene description
    synaptotagmin-2
    Locus tag
    OSNPB_090538800
    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
    B1274F11.3
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    Genomic context

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    See LOC4347715 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (25655407..25661065, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (21213337..21222931, complement)

    Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene probable L-ascorbate peroxidase 4, peroxisomal Neighboring gene protein ALTERED PHOSPHATE STARVATION RESPONSE 1 Neighboring gene uncharacterized LOC4347716 Neighboring gene CASP-like protein 4A1

    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. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. 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 lipid binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    synaptotagmin-2
    Names
    Os09g0538800
    P0229B10.34
    putative CLB1 protein

    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_089043.1 Reference ASM3414082v1 Primary Assembly

      Range
      25655407..25661065 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756696.3 → XP_015612182.1  synaptotagmin-2

      UniProtKB/TrEMBL
      A0A0N7KR68, A2Z3J5, Q651F3, Q69JE2
      Conserved Domains (2) summary
      COG5038
      Location:67 → 473
      COG5038; Ca2+-dependent lipid-binding protein, contains C2 domain [General function prediction only]
      cl14603
      Location:419 → 536
      C2; C2 domain
    Nucleotide Protein
    Heading Accession and Version

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