U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4324795 transcription factor LHW [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324795, updated on 1-Aug-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4324795
    Gene description
    transcription factor LHW
    Locus tag
    OSNPB_010865600
    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
    Ubiquitous expression in roots after flowering (RPKM 12.1), leaves before flowering (RPKM 11.8) 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
    See LOC4324795 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (38085222..38091533)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (37457458..37463814)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uricase Neighboring gene putative UDP-rhamnose:rhamnosyltransferase 1 Neighboring gene E3 ubiquitin-protein ligase PUB23 Neighboring gene dof zinc finger protein MNB1A

    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. 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 transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein dimerization 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 

    General protein information

    Go to the top of the page Help
    Preferred Names
    transcription factor LHW
    Names
    Os01g0865600
    P0505D12.13
    bHLH transcription factor-like protein

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      38085222..38091533
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015764342.3 → XP_015619828.1  transcription factor LHW isoform X1

      UniProtKB/TrEMBL
      A2WXA5
      Conserved Domains (2) summary
      cd00083
      Location:688 → 745
      HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
      pfam14215
      Location:7 → 193
      bHLH-MYC_N; bHLH-MYC and R2R3-MYB transcription factors N-terminal

    2. XM_015764351.2 → XP_015619837.1  transcription factor LHW isoform X3

      UniProtKB/TrEMBL
      A0A0N7KE43, A0A5S6R7U4, A0A9K3Y7N6, A2WXA5, Q0JHG5, Q5N9E6
      Conserved Domains (2) summary
      pfam14215
      Location:7 → 193
      bHLH-MYC_N; bHLH-MYC and R2R3-MYB transcription factors N-terminal
      cd18915
      Location:698 → 767
      bHLH_AtLHW_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein LONESOME HIGHWAY (LHW) and similar proteins

    3. XM_066306116.1 → XP_066162213.1  transcription factor LHW isoform X2

      UniProtKB/TrEMBL
      A2WXA5

    4. XM_066306123.1 → XP_066162220.1  transcription factor LHW isoform X4

      UniProtKB/TrEMBL
      A2WXA5

    RNA

    1. XR_010738169.1 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