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    LOC4338696 CSC1-like protein At4g02900 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4338696, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4338696
    Gene description
    CSC1-like protein At4g02900
    Locus tag
    OSNPB_050393800
    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 6.2), flowers (RPKM 3.3) and 4 other tissues See more
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    Genomic context

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    See LOC4338696 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (19261622..19267689)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (19159986..19166134)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene protein PALE CRESS, chloroplastic Neighboring gene isoamylase 2, chloroplastic-like Neighboring gene protein Rf1, mitochondrial Neighboring gene protein ALP1-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
    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

    Function Evidence Code Pubs
    enables calcium-activated cation channel activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    CSC1-like protein At4g02900
    Names
    Os05g0393800

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      19261622..19267689
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782349.3 → XP_015637835.1  CSC1-like protein At4g02900

      UniProtKB/TrEMBL
      A0A097NUR2, A2Y4C8, B9FPG2, Q0DIF2, Q6AU79
      Conserved Domains (2) summary
      COG5594
      Location:13 → 680
      COG5594; Uncharacterized integral membrane protein [Function unknown]
      pfam02714
      Location:371 → 642
      RSN1_7TM; Calcium-dependent channel, 7TM region, putative phosphate
    Nucleotide Protein
    Heading Accession and Version

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