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    LOC4335954 PHD finger protein ALFIN-LIKE 4-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4335954, updated on 6-Jun-2024

    Summary

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    Gene symbol
    LOC4335954
    Gene description
    PHD finger protein ALFIN-LIKE 4-like
    Locus tag
    OSNPB_040444900
    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
    OsJ_14937
    Expression
    Ubiquitous expression in leaves after flowering (RPKM 11.7), flower buds (RPKM 11.5) and 6 other tissues See more
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    Genomic context

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    See LOC4335954 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (22189007..22191742)

    Chromosome 4 - NC_029259.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4335952 Neighboring gene ferric reduction oxidase 7, chloroplastic Neighboring gene potassium channel KOR2-like Neighboring gene uncharacterized LOC112938630 Neighboring gene 23.2 kDa heat shock protein-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029259.1 Chromosome 4 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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
    2. 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 histone binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transcription coregulator activity 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
    PHD finger protein ALFIN-LIKE 4; pHD finger protein ALFIN-LIKE 4
    Names
    LOC_Os04g36730
    OSJNBa0027P08.7

    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_001419358.1 → NP_001406287.1  pHD finger protein ALFIN-LIKE 4

      Status: VALIDATED

      Source sequence(s)
      CB649988, CI078234
      UniProtKB/Swiss-Prot
      A0A0P0WAL5, A2XTW9, Q7XUW3
      UniProtKB/TrEMBL
      Q01J42

    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_029259.1 Reference IRGSP-1.0 Primary Assembly

      Range
      22189007..22191742
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015780623.2 → XP_015636109.1  PHD finger protein ALFIN-LIKE 4

      UniProtKB/Swiss-Prot
      Q7XUW3
      Conserved Domains (2) summary
      cd15613
      Location:203 → 252
      PHD_AL_plant; PHD finger found in plant Alfin1-like (AL) proteins
      pfam12165
      Location:17 → 144
      Alfin
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7XUW3.2 GenPept UniProtKB/Swiss-Prot:Q7XUW3

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