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    LOC4329678 chloride channel protein CLC-c [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329678, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4329678
    Gene description
    chloride channel protein CLC-c
    Locus tag
    OSNPB_020558100
    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
    OsCLC-2
    Expression
    Ubiquitous expression in roots before flowering (RPKM 10.0), flower buds (RPKM 8.8) and 5 other tissues See more
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    Genomic context

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    See LOC4329678 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (21629694..21635718, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (21150698..21161701, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene NADPH-dependent pterin aldehyde reductase Neighboring gene two-component response regulator ORR2-like Neighboring gene uncharacterized LOC136355319 Neighboring gene transfer RNA serine (anticodon AGA)

    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
    • 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. Molecular cloning, functional expression and subcellular localization of two putative vacuolar voltage-gated chloride channels in rice (Oryza sativa L.). Nakamura A, et al. Plant Cell Physiol, 2006 Jan. PMID 16249326
    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables voltage-gated chloride channel activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chloride transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plant-type vacuole membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chloride channel protein CLC-c
    Names
    OSJNBb0038F20.15-1
    Os02g0558100

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      21629694..21635718 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771106.3 → XP_015626592.1  chloride channel protein CLC-c

      UniProtKB/TrEMBL
      B9F0K6, Q6YVX5, Q8LPA1
      Conserved Domains (2) summary
      cd03685
      Location:81 → 602
      ClC_6_like; ClC-6-like chloride channel proteins. This CD includes ClC-6, ClC-7 and ClC-B, C, D in plants. Proteins in this family are ubiquitous in eukarotes and their functions are unclear. They are expressed in intracellular organelles membranes. This family ...
      cd04591
      Location:605 → 783
      CBS_pair_voltage-gated_CLC_euk_bac; Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the voltage gated CLC (chloride channel) in eukaryotes and bacteria
    Nucleotide Protein
    Heading Accession and Version

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