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    TRFL1 TRF-like 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 823812, updated on 15-Feb-2024

    Summary

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    Gene symbol
    TRFL1
    Gene description
    TRF-like 1
    Primary source
    Araport:AT3G46590
    Locus tag
    AT3G46590
    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
    ATTRP2; TRF-like 1; TRP2
    Summary
    Encodes a protein that specifically binds plant telomeric DNA (TTTAGGG)n repeats. Involved in bending DNA. Expressed throughout the plant with highest levels in flowers.
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    9
    Sequence:
    Chromosome: 3; NC_003074.8 (17152460..17156240)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene methyl-CPG-binding domain protein 5 Neighboring gene tRNA-Gly Neighboring gene GRAS family transcription factor Neighboring gene Pentatricopeptide repeat (PPR-like) superfamily protein Neighboring gene ROTUNDIFOLIA like 4

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. AtTBP2 and AtTRP2 in Arabidopsis encode proteins that bind plant telomeric DNA and induce DNA bending in vitro. Hwang MG, et al. Mol Genet Genomics, 2005 Mar. PMID 15688221
    2. A C-terminal Myb extension domain defines a novel family of double-strand telomeric DNA-binding proteins in Arabidopsis. Karamysheva ZN, et al. J Biol Chem, 2004 Nov 12. PMID 15364931
    3. PAH-domain-specific interactions of the Arabidopsis transcription coregulator SIN3-LIKE1 (SNL1) with telomere-binding protein 1 and ALWAYS EARLY2 Myb-DNA binding factors. Bowen AJ, et al. J Mol Biol, 2010 Feb 5. PMID 19962994
    4. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713
    5. Multi-omics network-based functional annotation of unknown Arabidopsis genes. Depuydt T, et al. Plant J, 2021 Nov. PMID 34562334

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. AtTRP2 in Arabidopsis encodes a protein that binds plant telomeric DNA and induces DNA bending in vitro.
      Title: AtTBP2 and AtTRP2 in Arabidopsis encode proteins that bind plant telomeric DNA and induce DNA bending in vitro.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001035744.2
    NM_001035745.2
    NM_001339266.1
    NM_001339267.1
    NM_114526.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding, bending IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables telomeric DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    TRF-like 1
    NP_001030821.1
    • TRF-like 1 (TRFL1); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Ubiquitin supergroup (InterPro:IPR019955), Homeodomain-related (InterPro:IPR012287), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930); BEST Arabidopsis thaliana protein match is: telomeric repeat binding protein 1 (TAIR:AT5G59430.3); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_001030822.2
    • TRF-like 1 (TRFL1); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Ubiquitin supergroup (InterPro:IPR019955), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930), Homeodomain-related (InterPro:IPR012287); BEST Arabidopsis thaliana protein match is: telomeric repeat binding protein 1 (TAIR:AT5G59430.3); Has 308 Blast hits to 292 proteins in 39 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 287; Viruses - 0; Other Eukaryotes - 21 (source: NCBI BLink).
    NP_190243.2
    • TRF-like 1 (TRFL1); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Ubiquitin supergroup (InterPro:IPR019955), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930), Homeodomain-related (InterPro:IPR012287); BEST Arabidopsis thaliana protein match is: telomeric repeat binding protein 1 (TAIR:AT5G59430.3); Has 310 Blast hits to 294 proteins in 39 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 289; Viruses - 0; Other Eukaryotes - 21 (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_003074.8 Reference assembly

      Range
      17152460..17156240
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001035744.2 → NP_001030821.1  TRF-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001030821.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q2V3Q5, Q3L8D5, Q700E9, Q8RX21, Q8W4L7, Q9SNB9
      UniProtKB/TrEMBL
      A0A178VGD9, A0A7G2EVN8
      Conserved Domains (2) summary
      cd11660
      Location:454 → 504
      SANT_TRF; Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family
      cd17039
      Location:287 → 353
      Ubl_ubiquitin_like; ubiquitin-like (Ubl) domain found in ubiquitin and ubiquitin-like Ubl proteins

    2. NM_001339266.1 → NP_001326037.1  TRF-like 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN24

    3. NM_114526.3 → NP_190243.2  TRF-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190243.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VIH1, A0A7G2EUD5
      Conserved Domains (3) summary
      smart00717
      Location:452 → 504
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      cd11660
      Location:453 → 503
      SANT_TRF; Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family
      cl00155
      Location:298 → 348
      UBQ; Ubiquitin-like proteins

    4. NM_001035745.2 → NP_001030822.2  TRF-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001030822.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2EVN8
      Conserved Domains (3) summary
      smart00717
      Location:447 → 499
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      cd11660
      Location:448 → 498
      SANT_TRF; Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family
      cl00155
      Location:293 → 343
      UBQ; Ubiquitin-like proteins

    5. NM_001339267.1 → NP_001326038.1  TRF-like 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN25, A0A7G2EUD5
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SNB9.1

    Gene LinkOut

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