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    LOC4324896 PHD finger protein ALFIN-LIKE 6-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324896, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4324896
    Gene description
    PHD finger protein ALFIN-LIKE 6-like
    Locus tag
    OSNPB_010887700
    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
    NBP; OsJ_04343
    Expression
    Ubiquitous expression in mature seeds (RPKM 34.3), roots before flowering (RPKM 29.0) and 6 other tissues See more
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    Genomic context

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    See LOC4324896 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (39196460..39201174, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (38566147..38570856, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136354803 Neighboring gene 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic-like Neighboring gene uncharacterized LOC9268172 Neighboring gene uncharacterized LOC107278481 Neighboring gene uncharacterized LOC136355506

    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. Functional isolation of novel nuclear proteins showing a variety of subnuclear localizations. Moriguchi K, et al. Plant Cell, 2005 Feb. PMID 15659629, 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 6
    Names
    B1099D03.10
    LOC_Os01g66420
    P0434C04.30
    PHD finger protein ALFIN-LIKE 6
    nucleic acid binding protein

    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_001405447.1 → NP_001392376.1  pHD finger protein ALFIN-LIKE 6 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AF045571, AU071045, CI595656
      UniProtKB/Swiss-Prot
      A2WXR5
      UniProtKB/TrEMBL
      O49216

    2. NM_001405448.1 → NP_001392377.1  pHD finger protein ALFIN-LIKE 6 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AU071045, AU082754, BP184955, CI595656
      UniProtKB/Swiss-Prot
      A0A0P0VBC6, A2WXR5, O49228, Q7F2Z1

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      39196460..39201174 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7F2Z1.1 GenPept UniProtKB/Swiss-Prot:Q7F2Z1

    Gene LinkOut

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