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LOC4333598 uncharacterized LOC4333598 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4333598, updated on 12-Jul-2024

Summary

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Gene symbol
LOC4333598
Gene description
uncharacterized LOC4333598
Locus tag
OSNPB_030652100
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 roots after flowering (RPKM 22.9), leaves before flowering (RPKM 20.8) and 6 other tissues See more
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Genomic context

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See LOC4333598 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (26199854..26210983)
102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (25334283..25345012)

Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112938331 Neighboring gene multiple C2 domain and transmembrane region protein 14 Neighboring gene uncharacterized LOC136355672 Neighboring gene uncharacterized LOC136355876

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

Process Evidence Code Pubs
involved_in nuclear-transcribed mRNA poly(A) tail shortening IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of CCR4-NOT core complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in P-body IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
uncharacterized protein LOC4333598
Names
Os03g0652100
general negative regulator of transcription subunit 3

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
    26199854..26210983
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015776827.3 → XP_015632313.1  uncharacterized protein LOC4333598 isoform X1

    UniProtKB/TrEMBL
    Q10FX7
    Conserved Domains (4) summary
    COG5665
    Location:12 → 856
    COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
    pfam04065
    Location:3 → 233
    Not3; Not1 N-terminal domain, CCR4-Not complex component
    pfam04153
    Location:714 → 852
    NOT2_3_5; NOT2 / NOT3 / NOT5 family
    pfam08690
    Location:260 → 310
    GET2; GET complex subunit GET2

  2. XM_015776828.3 → XP_015632314.1  uncharacterized protein LOC4333598 isoform X2

    UniProtKB/TrEMBL
    A0A0P0W0W0, B8ANJ0, Q10FX7, Q7XZZ2
    Conserved Domains (3) summary
    COG5665
    Location:12 → 849
    COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
    pfam04065
    Location:3 → 226
    Not3; Not1 N-terminal domain, CCR4-Not complex component
    pfam17823
    Location:245 → 477
    DUF5585; Family of unknown function (DUF5585)
Nucleotide Protein
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