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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 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
  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

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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