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    LOC4335702 chaperone protein ClpC1, chloroplastic-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4335702, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4335702
    Gene description
    chaperone protein ClpC1, chloroplastic-like
    Locus tag
    OSNPB_040397100
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    CLPC1
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 225.2), roots after flowering (RPKM 204.3) and 6 other tissues See more
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    Genomic context

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    See LOC4335702 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (19969147..19975712, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (19601354..19607919, complement)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene serine carboxypeptidase-like 45 Neighboring gene dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1-like Neighboring gene uncharacterized LOC107280807 Neighboring gene trihelix transcription factor ASR3

    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. The Nucleotide-Dependent Interactome of Rice Heterotrimeric G-Protein α -Subunit. Biswal AK, et al. Proteomics, 2019 May. PMID 30866160
    2. 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
    3. 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
    4. 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP hydrolysis 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 cellular response to heat IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chaperone protein ClpC1, chloroplastic
    Names
    ATP-dependent Clp protease ATP-binding subunit ClpC homolog 1
    Casein lytic proteinase C1
    LOC_Os04g32560
    OSJNBa0039C07.4

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001419310.1 → NP_001406239.1  chaperone protein ClpC1, chloroplastic

      Status: VALIDATED

      Source sequence(s)
      AP014960
      UniProtKB/Swiss-Prot
      Q0JDK8, Q7F9I1

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      19969147..19975712 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066309153.1 → XP_066165250.1  chaperone protein ClpC1, chloroplastic isoform X1

      UniProtKB/Swiss-Prot
      Q0JDK8, Q7F9I1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7F9I1.2 GenPept UniProtKB/Swiss-Prot:Q7F9I1

    Gene LinkOut

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