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LOC4337192 protein REDUCED CHLOROPLAST COVERAGE 3 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4337192, updated on 16-Jul-2024

Summary

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Gene symbol
LOC4337192
Gene description
protein REDUCED CHLOROPLAST COVERAGE 3
Locus tag
OSNPB_040645100
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 before flowering (RPKM 54.6), roots before flowering (RPKM 34.0) and 6 other tissues See more
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Genomic context

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See LOC4337192 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (33342025..33355163)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (32835149..32848270)

Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene putative chloride channel-like protein CLC-g Neighboring gene synaptotagmin-5 Neighboring gene VQ motif-containing protein 11 Neighboring gene uncharacterized LOC4337194 Neighboring gene uncharacterized vacuolar membrane protein YML018C

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. Three novel alleles of FLOURY ENDOSPERM2 (FLO2) confer dull grains with low amylose content in rice. Wu YP, et al. Plant Sci, 2015 Apr. PMID 25711812
  2. A novel factor FLOURY ENDOSPERM2 is involved in regulation of rice grain size and starch quality. She KC, et al. Plant Cell, 2010 Oct. PMID 20889913, Free PMC Article
  3. 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
  4. 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
  5. 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 protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in organelle organization 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
protein REDUCED CHLOROPLAST COVERAGE 3
Names
Os04g0645100
protein TSS

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_089038.1 Reference ASM3414082v1 Primary Assembly

    Range
    33342025..33355163
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015780251.3 → XP_015635737.1  protein REDUCED CHLOROPLAST COVERAGE 3

    UniProtKB/TrEMBL
    B8AV88, B9FCT8, Q7XQE6
    Conserved Domains (4) summary
    cd15466
    Location:721 → 863
    CLU-central; An uncharacterized central domain of CLU mitochondrial proteins
    sd00006
    Location:933 → 961
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:931 → 1002
    TPR_12; Tetratricopeptide repeat
    pfam15044
    Location:53 → 92
    CLU_N; Mitochondrial function, CLU-N-term

RNA

  1. XR_001545391.3 RNA Sequence

Nucleotide Protein
Heading Accession and Version

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