U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    TRN1 tornado 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835648, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    TRN1
    Official Full Name
    tornado 1
    Primary source
    TAIR:AT5G55540
    Locus tag
    AT5G55540
    See related
    Araport:AT5G55540
    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
    LOP1; LOPPED 1; MTE17.26; MTE17_26; TORNADO 1
    Summary
    Encodes a large plant-specific protein of unknown function, with conserved domains also found in a variety of signaling proteins, In trn mutants, the leaf venation network had a severely reduced complexity: incomplete loops, no tertiary or quaternary veins, and vascular islands. The leaf laminas were asymmetric and narrow because of a severely reduced cell number. TRN1 is required for the maintenance of both the radial pattern of tissue differentiation in the root and for the subsequent circumferential pattern within the epidermis. Double mutant analysis showed that TRN1 and TRN2 act in the same pathway.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See TRN1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    2
    Sequence:
    Chromosome: 5; NC_003076.8 (22496196..22500714, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene kinesin-like protein Neighboring gene Calcium-dependent lipid-binding (CaLB domain) family protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene Protein kinase superfamily protein

    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. LOP1: a gene involved in auxin transport and vascular patterning in Arabidopsis. Carland FM, et al. Development, 1996 Jun. PMID 8674420
    2. TORNADO1 regulates root epidermal patterning through the WEREWOLF pathway in Arabidopsis thaliana. Kwak SH, et al. Plant Signal Behav, 2015. PMID 26451798, Free PMC Article
    3. The TORNADO1 and TORNADO2 genes function in several patterning processes during early leaf development in Arabidopsis thaliana. Cnops G, et al. Plant Cell, 2006 Apr. PMID 16531491, Free PMC Article
    4. Tornado1 and tornado2 are required for the specification of radial and circumferential pattern in the Arabidopsis root. Cnops G, et al. Development, 2000 Aug. PMID 10887093
    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. TRN1 regulates the position-dependent cell fate determination by affecting WER expression in Arabidopsis root epidermis.[TORNADO1]
      Title: TORNADO1 regulates root epidermal patterning through the WEREWOLF pathway in Arabidopsis thaliana.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help
    NM_001345135.1
    NM_124936.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within auxin polar transport IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within auxin polar transport IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in basipetal auxin transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within leaf morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within leaf vascular tissue pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within meristem structural organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within multidimensional cell growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within radial pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    tornado 1
    NP_200365.1
    • TORNADO 1 (TRN1); BEST Arabidopsis thaliana protein match is: RNI-like superfamily protein (TAIR:AT1G10510.1); 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)

    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
      22496196..22500714 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_124936.3 → NP_200365.1  tornado 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_200365.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9FJ57
      UniProtKB/TrEMBL
      A0A178UQ40
      Conserved Domains (3) summary
      cd00116
      Location:103 → 257
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      pfam16095
      Location:724 → 930
      COR; C-terminal of Roc, COR, domain
      cl21455
      Location:504 → 695
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. NM_001345135.1 → NP_001330366.1  tornado 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UQ40, A0A1P8BAL5
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FJ57.1

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools