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LOC4347896 ubiquitin-60S ribosomal protein L40-2-like [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4347896, updated on 16-Jul-2024

Summary

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Gene symbol
LOC4347896
Gene description
ubiquitin-60S ribosomal protein L40-2-like
Locus tag
OSNPB_090568400
Gene type
protein coding
RefSeq status
VALIDATED
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
UBQ2; Ub-CEP52-2; OJ1003_C09.10-1
Expression
Ubiquitous expression in flower buds (RPKM 142.5), milk grains (RPKM 74.8) and 6 other tissues See more
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Genomic context

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See LOC4347896 in Genome Data Viewer
Location:
chromosome: 9
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (27137898..27140114)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (22692664..22694815)

Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene DNA polymerase II subunit B4 Neighboring gene transfer RNA proline (anticodon CGG) Neighboring gene small nucleolar RNA Z266 Neighboring gene small nucleolar RNA Z266 Neighboring gene germin-like protein 9-1 Neighboring gene putative germin-like protein 9-2

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 protein tag activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables structural constituent of ribosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in modification-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in translation 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 
located_in ribosome IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
ubiquitin-ribosomal protein eL40y fusion protein
Names
LOC_Os09g39500
ubiquitin / ribosomal protein CEP52
ubiquitin-60S ribosomal protein L40-2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001422949.1 → NP_001409878.1  ubiquitin-ribosomal protein eL40y fusion protein

    Status: VALIDATED

    Source sequence(s)
    CF307939, CF338982, EE591973
    UniProtKB/Swiss-Prot
    P0CH34, P0CH35, P35296, Q10PH1
    UniProtKB/TrEMBL
    A6N0G0, B8BEN6

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_089043.1 Reference ASM3414082v1 Primary Assembly

    Range
    27137898..27140114
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0CH35.1 GenPept UniProtKB/Swiss-Prot:P0CH35

Gene LinkOut

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Molecular Biology Databases
Research Materials