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LOC4331458 probable polygalacturonase [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4331458, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4331458
Gene description
probable polygalacturonase
Locus tag
OSNPB_030124900
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
Biased expression in flower buds (RPKM 40.7), flowers (RPKM 38.9) and 2 other tissues See more
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Genomic context

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See LOC4331458 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (1438422..1441589)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (1430406..1433753)

Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136355781 Neighboring gene uncharacterized LOC4331456 Neighboring gene 50S ribosomal protein L5, chloroplastic-like Neighboring gene beta-carotene hydroxylase 2, chloroplastic Neighboring gene transfer RNA histidin (anticodon GUG)

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

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables polygalacturonase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
probable polygalacturonase
Names
Os03g0124900

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_089037.1 Reference ASM3414082v1 Primary Assembly

    Range
    1438422..1441589
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015772369.3 → XP_015627855.1  probable polygalacturonase

    UniProtKB/TrEMBL
    A0A8J8Y4W1, A3ADN3, Q0DVL1, Q10SE9
    Conserved Domains (1) summary
    COG5434
    Location:22 → 407
    Pgu1; Polygalacturonase [Carbohydrate transport and metabolism]
Nucleotide Protein
Heading Accession and Version

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