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LOC4346476 WD repeat and HMG-box DNA-binding protein 1 [ Oryza sativa Japonica Group (Japanese rice) ]

Gene ID: 4346476, updated on 21-Dec-2023

Summary

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Gene symbol
LOC4346476
Gene description
WD repeat and HMG-box DNA-binding protein 1
Locus tag
OSNPB_090241100
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 flowers (RPKM 1.6), flower buds (RPKM 1.6) and 6 other tissues See more
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Genomic context

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See LOC4346476 in Genome Data Viewer
Location:
chromosome: 9
Exon count:
12
Annotation release Status Assembly Chr Location
102 current IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (3114968..3125219)

Chromosome 9 - NC_029264.1Genomic Context describing neighboring genes Neighboring gene sulfate transporter 4.1, chloroplastic Neighboring gene uncharacterized LOC112936413 Neighboring gene uncharacterized LOC9272276 Neighboring gene small nucleolar RNA R71

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_029264.1 Chromosome 9 Reference IRGSP-1.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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 chromatin binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in DNA-templated DNA replication IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in mitotic cell cycle IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in nuclear replication fork IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
WD repeat and HMG-box DNA-binding protein 1
Names
Os09g0241100

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference IRGSP-1.0 Primary Assembly

Genomic

  1. NC_029264.1 Reference IRGSP-1.0 Primary Assembly

    Range
    3114968..3125219
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_015757073.2 → XP_015612559.1  WD repeat and HMG-box DNA-binding protein 1

    UniProtKB/TrEMBL
    B8BD71
    Conserved Domains (3) summary
    cd00200
    Location:123 → 414
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:182 → 220
    7WD40; WD40 repeat [structural motif]
    pfam12341
    Location:546 → 828
    Mcl1_mid; Minichromosome loss protein, Mcl1, middle region
Nucleotide Protein
Heading Accession and Version

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