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    T6 class I knotted-like homeodomain protein [ Solanum lycopersicum (tomato) ]

    Gene ID: 543520, updated on 1-Nov-2024

    Summary

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    Gene symbol
    T6
    Gene description
    class I knotted-like homeodomain protein
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Solanum lycopersicum
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Solanum subgen. Lycopersicon
    Also known as
    LeT6; TKn2
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_09 current SLM_r2.1 (GCF_036512215.1) 2 NC_090801.1 (61371818..61377132)
    103 previous assembly SL3.0 (GCF_000188115.4) 2 NC_015439.3 (45744164..45748419)

    Chromosome 2 - NC_090801.1Genomic Context describing neighboring genes Neighboring gene O-fucosyltransferase family protein Neighboring gene uncharacterized LOC112940057 Neighboring gene chromatin remodeling protein EBS Neighboring gene plant UBX domain-containing protein 4-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Isolation and characterization of two knotted-like homeobox genes from tomato. Janssen BJ, et al. Plant Mol Biol, 1998 Feb. PMID 9484482
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    homeobox protein knotted-1-like LET6
    Names
    knotted 2 protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001247012.2 → NP_001233941.2  homeobox protein knotted-1-like LET6

      Status: VALIDATED

      Source sequence(s)
      AEKE03003138
      UniProtKB/Swiss-Prot
      O22299
      Conserved Domains (4) summary
      pfam03789
      Location:236 → 257
      ELK; ELK domain
      pfam03790
      Location:100 → 133
      KNOX1; KNOX1 domain
      pfam03791
      Location:152 → 196
      KNOX2; KNOX2 domain
      pfam05920
      Location:277 → 315
      Homeobox_KN; Homeobox KN domain

    RefSeqs of Annotated Genomes: GCF_036512215.1-RS_2024_09

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

    Reference SLM_r2.1 Primary Assembly

    Genomic

    1. NC_090801.1 Reference SLM_r2.1 Primary Assembly

      Range
      61371818..61377132
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_010317565.4 → XP_010315867.1  homeobox protein knotted-1-like LET6 isoform X2

      Conserved Domains (4) summary
      pfam03789
      Location:180 → 201
      ELK; ELK domain
      pfam03790
      Location:42 → 75
      KNOX1; KNOX1 domain
      pfam03791
      Location:94 → 138
      KNOX2; KNOX2 domain
      pfam05920
      Location:220 → 259
      Homeobox_KN; Homeobox KN domain

    2. XM_069293136.1 → XP_069149237.1  homeobox protein knotted-1-like LET6 isoform X3

    3. XM_010317564.3 → XP_010315866.1  homeobox protein knotted-1-like LET6 isoform X1

      UniProtKB/Swiss-Prot
      O22299
      UniProtKB/TrEMBL
      A0A3Q7F5B5
      Conserved Domains (4) summary
      pfam03789
      Location:238 → 259
      ELK; ELK domain
      pfam03790
      Location:100 → 133
      KNOX1; KNOX1 domain
      pfam03791
      Location:152 → 196
      KNOX2; KNOX2 domain
      pfam05920
      Location:278 → 317
      Homeobox_KN; Homeobox KN domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O22299.1 GenPept UniProtKB/Swiss-Prot:O22299

    Gene LinkOut

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    Molecular Biology Databases