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    sequence-specific DNA binding transcription factor [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830438, updated on 18-Sep-2024

    Summary

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    Official Full Name
    sequence-specific DNA binding transcription factor
    Primary source
    TAIR:AT5G05550
    Locus tag
    AT5G05550
    See related
    Araport:AT5G05550
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    MOP10.9; MOP10_9
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    3
    Sequence:
    Chromosome: 5; NC_003076.8 (1639000..1640960, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene RING/U-box superfamily protein Neighboring gene small RNA degrading nuclease 2 Neighboring gene E3 ubiquitin ligase Neighboring gene transducin family protein / WD-40 repeat family protein Neighboring gene fatty acid desaturase 8 Neighboring gene phosphoribosylanthranilate isomerase 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Interaction of Arabidopsis Trihelix-Domain Transcription Factors VFP3 and VFP5 with Agrobacterium Virulence Protein VirF. García-Cano E, et al. PLoS One, 2015. PMID 26571494, Free PMC Article
    2. EIN2-dependent regulation of acetylation of histone H3K14 and non-canonical histone H3K23 in ethylene signalling. Zhang F, et al. Nat Commun, 2016 Oct 3. PMID 27694846, Free PMC Article
    3. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Riechmann JL, et al. Science, 2000 Dec 15. PMID 11118137
    4. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    5. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. VirF interacts with the VFP3 homolog VFP5 encoded by At5g05550.
      Title: Interaction of Arabidopsis Trihelix-Domain Transcription Factors VFP3 and VFP5 with Agrobacterium Virulence Protein VirF.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001342823.1
    NM_120637.2
    NM_180443.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within ethylene-activated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    sequence-specific DNA binding transcription factor
    NP_568158.1
    • sequence-specific DNA binding transcription factors; BEST Arabidopsis thaliana protein match is: sequence-specific DNA binding transcription factors (TAIR:AT3G11100.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_850774.1
    • sequence-specific DNA binding transcription factors; BEST Arabidopsis thaliana protein match is: sequence-specific DNA binding transcription factors (TAIR:AT3G11100.1); Has 359 Blast hits to 349 proteins in 25 species: Archae - 0; Bacteria - 0; Metazoa - 8; Fungi - 0; Plants - 349; Viruses - 0; Other Eukaryotes - 2 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      1639000..1640960 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_120637.2 → NP_568158.1  sequence-specific DNA binding transcription factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568158.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UMT7
      Conserved Domains (2) summary
      pfam13837
      Location:21 → 104
      Myb_DNA-bind_4; Myb/SANT-like DNA-binding domain
      cl19107
      Location:190 → 234
      SPFH_like; core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily

    2. NM_180443.2 → NP_850774.1  sequence-specific DNA binding transcription factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850774.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2FB53, F4K0Q7
      Conserved Domains (2) summary
      pfam13837
      Location:21 → 104
      Myb_DNA-bind_4; Myb/SANT-like DNA-binding domain
      cl19107
      Location:190 → 234
      SPFH_like; core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily

    3. NM_001342823.1 → NP_001332681.1  sequence-specific DNA binding transcription factor [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q94AX7, Q9FFG0
      UniProtKB/TrEMBL
      A0A178UP03, A0A5S9Y1N1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FFG0.1

    Gene LinkOut

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