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    LOC4340565 homeobox protein HAZ1-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340565, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4340565
    Gene description
    homeobox protein HAZ1-like
    Locus tag
    OSNPB_060229300
    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
    HAZ1; HOX1A
    Expression
    Ubiquitous expression in roots after flowering (RPKM 13.4), mature seeds (RPKM 11.4) and 6 other tissues See more
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    Genomic context

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    See LOC4340565 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (6893442..6902557)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (6725293..6734446)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene ATP-dependent zinc metalloprotease FTSH 6, chloroplastic-like Neighboring gene beta-1,3-galactosyltransferase GALT1 Neighboring gene GDSL esterase/lipase At1g74460 Neighboring gene soluble starch synthase 2-3, chloroplastic/amyloplastic-like

    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. Radial axis differentiation in a globular embryo is marked by HAZ1, a PHD-finger homeobox gene of rice. Ito Y, et al. Gene, 2004 Apr 28. PMID 15094187
    2. 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
    3. 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

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin organization 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
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    homeobox protein HAZ1
    Names
    LOC_Os06g12400
    Os06g0229300
    P0525F01.18
    PHD-finger family homeodomain protein
    homeobox protein HOX1A
    homeobox protein HOX1A homolog

    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_001402797.1 → NP_001389726.1  homeobox protein HAZ1

      Status: VALIDATED

      Source sequence(s)
      AB081340, AK121314, AP014962, CB664448
      UniProtKB/Swiss-Prot
      Q8H990, Q8H991

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      6893442..6902557
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026026330.2 → XP_025882115.1  homeobox protein HAZ1 isoform X1

      Conserved Domains (2) summary
      cd00086
      Location:613 → 653
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      cd15504
      Location:246 → 298
      PHD_PRHA_like; PHD finger found in Arabidopsis thaliana pathogenesis-related homeodomain protein (PRHA) and similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8H991.1 GenPept UniProtKB/Swiss-Prot:Q8H991

    Gene LinkOut

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