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    LOC4334523 DNA-binding protein EMBP-1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334523, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4334523
    Gene description
    DNA-binding protein EMBP-1
    Locus tag
    OSNPB_030809200
    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 mature seeds (RPKM 37.8) and milk grains (RPKM 5.6) See more
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    Genomic context

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    See LOC4334523 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (34815205..34818385)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (33842711..33845536)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene dirigent protein 15 Neighboring gene uncharacterized LOC4334522 Neighboring gene probable protein phosphatase 2C 80 Neighboring gene uncharacterized LOC107277748

    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
    • 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 DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-binding protein EMBP-1
    Names
    Os03g0809200

    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
      34815205..34818385
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015776643.3 → XP_015632129.1  DNA-binding protein EMBP-1 isoform X2

      Conserved Domains (4) summary
      smart00338
      Location:232 → 296
      BRLZ; basic region leucin zipper
      cd14702
      Location:237 → 287
      bZIP_plant_GBF1; coiled coil [structural motif]
      pfam07777
      Location:62 → 102
      MFMR; G-box binding protein MFMR
      pfam08286
      Location:262 → 336
      Spc24; Spc24 subunit of Ndc80

    2. XM_026024029.2 → XP_025879814.1  DNA-binding protein EMBP-1 isoform X5

      UniProtKB/TrEMBL
      Q6ATQ1
      Conserved Domains (4) summary
      smart00338
      Location:234 → 298
      BRLZ; basic region leucin zipper
      cd14702
      Location:239 → 289
      bZIP_plant_GBF1; coiled coil [structural motif]
      pfam07106
      Location:257 → 341
      TBPIP; Tat binding protein 1(TBP-1)-interacting protein (TBPIP)
      pfam07777
      Location:63 → 104
      MFMR; G-box binding protein MFMR

    3. XM_015776642.3 → XP_015632128.1  DNA-binding protein EMBP-1 isoform X1

      Conserved Domains (4) summary
      smart00338
      Location:233 → 297
      BRLZ; basic region leucin zipper
      cd14702
      Location:238 → 288
      bZIP_plant_GBF1; coiled coil [structural motif]
      pfam07777
      Location:62 → 103
      MFMR; G-box binding protein MFMR
      pfam08286
      Location:263 → 337
      Spc24; Spc24 subunit of Ndc80

    4. XM_026024030.2 → XP_025879815.1  DNA-binding protein EMBP-1 isoform X3

      Conserved Domains (4) summary
      smart00338
      Location:231 → 295
      BRLZ; basic region leucin zipper
      cd14702
      Location:236 → 286
      bZIP_plant_GBF1; coiled coil [structural motif]
      pfam07106
      Location:254 → 338
      TBPIP; Tat binding protein 1(TBP-1)-interacting protein (TBPIP)
      pfam07777
      Location:63 → 101
      MFMR; G-box binding protein MFMR

    5. XM_066308925.1 → XP_066165022.1  DNA-binding protein EMBP-1 isoform X4

    Nucleotide Protein
    Heading Accession and Version

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