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    LOC4326685 heat stress transcription factor C-1a-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4326685, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4326685
    Gene description
    heat stress transcription factor C-1a-like
    Locus tag
    OSNPB_010625300
    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
    HSF02; HSF13; HSFC1A; rHsf13; OsHsf-02; OsJ_02668; OsJ_002575
    Expression
    Biased expression in roots before flowering (RPKM 4.0), flowers (RPKM 0.6) and 2 other tissues See more
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    Genomic context

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    See LOC4326685 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (25546034..25547683)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (24967265..24968885)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene WRKY transcription factor 22 Neighboring gene kinesin-like protein KIN-13B Neighboring gene transcription repressor OFP1 Neighboring gene uncharacterized LOC107279176

    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. 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
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    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 RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to heat IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II 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
    heat stress transcription factor C-1a
    Names
    Heat stress transcription factor 13
    Heat stress transcription factor 2
    LOC_Os01g43590
    P0006C01.11
    heat shock factor RHSF13
    heat shock transcription factor HSF21-like

    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_001398289.1 → NP_001385218.1  heat stress transcription factor C-1a

      Status: VALIDATED

      Source sequence(s)
      AK069479, AP014957, AY344495, CI342129
      UniProtKB/Swiss-Prot
      B9EY53, Q5ZEA6, Q6VBA4
      Conserved Domains (2) summary
      pfam00447
      Location:27 → 116
      HSF_DNA-bind; HSF-type DNA-binding
      pfam03999
      Location:155 → 237
      MAP65_ASE1; Microtubule associated protein (MAP65/ASE1 family)

    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
      25546034..25547683
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6VBA4.2 GenPept UniProtKB/Swiss-Prot:Q6VBA4

    Gene LinkOut

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