U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

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

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help
    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    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

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help
    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

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