U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4328295 pathogenesis-related homeodomain protein [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4328295, updated on 12-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4328295
    Gene description
    pathogenesis-related homeodomain protein
    Locus tag
    OSNPB_020147800
    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
    Also known as
    homeo; P0479D12.6
    Expression
    Ubiquitous expression in roots after flowering (RPKM 24.4), leaves after flowering (RPKM 20.8) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    chromosome: 2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (2628454..2634035)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (2620374..2626322)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136355131 Neighboring gene uncharacterized LOC4328293 Neighboring gene DNA-binding protein BIN4 Neighboring gene protein CHLOROPLAST IMPORT APPARATUS 2 Neighboring gene mitogen-activated protein kinase 3-like

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Development of an efficient method for the isolation of factors involved in gene transcription during rice embryo development. Ye R, et al. Plant J, 2004 Apr. PMID 15078336
    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

    Go to the top of the page Help

    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

    Go to the top of the page Help
    Preferred Names
    pathogenesis-related homeodomain protein
    Names
    Os02g0147800
    putative pathogenesis related homeodomain protein PRHA

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      2628454..2634035
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771331.3 → XP_015626817.1  pathogenesis-related homeodomain protein isoform X1

      UniProtKB/TrEMBL
      A0A0P0VEJ8, B8AHR5, B9F2Q5, Q6Z441
      Conserved Domains (2) summary
      cd00086
      Location:439 → 500
      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.
      cl22851
      Location:198 → 248
      PHD_SF; PHD finger superfamily

    2. XM_026023182.2 → XP_025878967.1  pathogenesis-related homeodomain protein isoform X3

      Conserved Domains (2) summary
      cd00086
      Location:256 → 317
      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.
      cl22851
      Location:15 → 65
      PHD_SF; PHD finger superfamily

    3. XM_066307371.1 → XP_066163468.1  pathogenesis-related homeodomain protein isoform X2

    RNA

    1. XR_010739245.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials