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    LOC4325239 probable gamma-secretase subunit PEN-2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325239, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4325239
    Gene description
    probable gamma-secretase subunit PEN-2
    Locus tag
    OSNPB_010960000
    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 leaves after flowering (RPKM 31.2), roots after flowering (RPKM 24.2) and 6 other tissues See more
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    Genomic context

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    See LOC4325239 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (42967434..42969803)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (42315236..42317696)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene phosphatidylserine decarboxylase proenzyme 2-like Neighboring gene NAD(P)H-quinone oxidoreductase subunit O, chloroplastic Neighboring gene transfer RNA phenylalanine (anticodon GAA) Neighboring gene nitrate regulatory gene2 protein

    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

    Component Evidence Code Pubs
    part_of gamma-secretase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable gamma-secretase subunit PEN-2
    Names
    Gamma-secretase subunit PEN2-like
    Os01g0960000
    P0401G10.22

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      42967434..42969803
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      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015793630.3 → XP_015649116.1  probable gamma-secretase subunit PEN-2

      UniProtKB/TrEMBL
      A0A0P0VDE9, B8A9J7, Q5JN39
      Conserved Domains (1) summary
      pfam10251
      Location:51 → 146
      PEN-2; Presenilin enhancer-2 subunit of gamma secretase
    Nucleotide Protein
    Heading Accession and Version

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