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LOC4339809 26S proteasome regulatory subunit RPN13 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4339809, updated on 17-Jul-2024

Summary

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Gene symbol
LOC4339809
Gene description
26S proteasome regulatory subunit RPN13
Locus tag
OSNPB_050594800
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 flower buds (RPKM 37.5), leaves before flowering (RPKM 33.0) and 6 other tissues See more
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Genomic context

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See LOC4339809 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (29804773..29809502, complement)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (29618194..29622953, complement)

Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107280890 Neighboring gene calcium permeable stress-gated cation channel 1 Neighboring gene sm-like protein LSM8 Neighboring gene pathogenesis-related protein 1 Neighboring gene UDP-glucose 4-epimerase 1-like Neighboring gene pathogenesis-related protein PR-1

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 endopeptidase activator activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables proteasome binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of proteasome regulatory particle, lid subcomplex IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
26S proteasome regulatory subunit RPN13
Names
Os05g0594800

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_089039.1 Reference ASM3414082v1 Primary Assembly

    Range
    29804773..29809502 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015784660.2 → XP_015640146.1  26S proteasome regulatory subunit RPN13

    UniProtKB/TrEMBL
    A0A0P0WR94, B8AXH4, Q0DFF0, Q5TKG0
    Conserved Domains (2) summary
    cd13314
    Location:12 → 115
    PH_Rpn13; Pleckstrin homology-like domain of Regulatory Particle Non-ATPase 13
    pfam16550
    Location:179 → 277
    RPN13_C; UCH-binding domain
Nucleotide Protein
Heading Accession and Version

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