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    KTF1 kow domain-containing transcription factor 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830308, updated on 18-Sep-2024

    Summary

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    Official Symbol
    KTF1
    Official Full Name
    kow domain-containing transcription factor 1
    Primary source
    TAIR:AT5G04290
    Locus tag
    AT5G04290
    See related
    Araport:AT5G04290
    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
    kow domain-containing transcription factor 1; SPT5-LIKE; SPT5L; T19N18.20; T19N18_20
    Summary
    Encodes SPT5-Like, a member of the nuclear SPT5 (Suppressor of Ty insertion 5) RNA polymerase (RNAP) elongation factor family that is characterized by the presence of a carboxy-terminal extension with more than 40 WG/GW motifs. Interacts with AGO4. Required for RNA-directed DNA methylation.
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    Genomic context

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    See KTF1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    19
    Sequence:
    Chromosome: 5; NC_003076.8 (1195969..1202936)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein Neighboring gene Pectin lyase-like superfamily protein Neighboring gene Shugoshin C terminus Neighboring gene Cytochrome P450 superfamily protein

    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. Identification of genes required for de novo DNA methylation in Arabidopsis. Greenberg MV, et al. Epigenetics, 2011 Mar. PMID 21150311, Free PMC Article
    2. Independent chromatin binding of ARGONAUTE4 and SPT5L/KTF1 mediates transcriptional gene silencing. Rowley MJ, et al. PLoS Genet, 2011 Jun. PMID 21738482, Free PMC Article
    3. An effector of RNA-directed DNA methylation in arabidopsis is an ARGONAUTE 4- and RNA-binding protein. He XJ, et al. Cell, 2009 May 1. PMID 19410546, Free PMC Article
    4. RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family. Bies-Etheve N, et al. EMBO Rep, 2009 Jun. PMID 19343051, Free PMC Article
    5. Domains rearranged methyltransferase3 controls DNA methylation and regulates RNA polymerase V transcript abundance in Arabidopsis. Zhong X, et al. Proc Natl Acad Sci U S A, 2015 Jan 20. PMID 25561521, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_120511.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA-templated transcription elongation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within gene silencing by siRNA-directed DNA methylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in gene silencing by siRNA-directed DNA methylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription elongation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within siRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm 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
    kow domain-containing transcription factor 1
    NP_196049.1
    • kow domain-containing transcription factor 1 (KTF1); CONTAINS InterPro DOMAIN/s: KOW (InterPro:IPR005824), Transcription elongation factor Spt5, NGN domain (InterPro:IPR005100); BEST Arabidopsis thaliana protein match is: global transcription factor group A2 (TAIR:AT4G08350.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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
      1195969..1202936
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001342760.1 → NP_001332032.1  kow domain-containing transcription factor 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BFP7, A0A5S9Y1A1

    2. NM_120511.1 → NP_196049.1  kow domain-containing transcription factor 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196049.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JW79
      UniProtKB/TrEMBL
      A0A5S9Y1A1
      Conserved Domains (6) summary
      cd09888
      Location:147 → 232
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:435 → 907
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:243 → 280
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06084
      Location:506 → 547
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      pfam11670
      Location:795 → 886
      MSP1a; Major surface protein 1a (MSP1a)
      cl00354
      Location:610 → 656
      KOW; KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F4JW79.1

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