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    PIL1 phytochrome interacting factor 3-like 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 819311, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PIL1
    Official Full Name
    phytochrome interacting factor 3-like 1
    Primary source
    TAIR:AT2G46970
    Locus tag
    AT2G46970
    See related
    Araport:AT2G46970
    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
    F14M4.20; phytochrome interacting factor 3-like 1
    Summary
    encodes a novel Myc-related bHLH transcription factor, which physically associated with APRR1/TOC1 and is a member of PIF3 transcription factor family.
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    Genomic context

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    See PIL1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    7
    Sequence:
    Chromosome: 2; NC_003071.7 (19295431..19297858, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene cytochrome P450, family 709, subfamily B, polypeptide 2 Neighboring gene cytochrome P450, family 709, subfamily B, polypeptide 1 Neighboring gene asynaptic protein Neighboring gene ncRNA Neighboring gene indole-3-acetic acid inducible 20

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. PIL1 participates in a negative feedback loop that regulates its own gene expression in response to shade. Li L, et al. Mol Plant, 2014 Oct. PMID 24895419, Free PMC Article
    2. Assembly of synthetic locked phycocyanobilin derivatives with phytochrome in vitro and in vivo in Ceratodon purpureus and Arabidopsis. Yang R, et al. Plant Cell, 2012 May. PMID 22582099, Free PMC Article
    3. The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: II. Characterization with CCA1-overexpressing plants. Matsushika A, et al. Plant Cell Physiol, 2002 Jan. PMID 11828029
    4. Phytochrome-regulated PIL1 derepression is developmentally modulated. Hwang YS, et al. Plant Cell Physiol, 2008 Apr. PMID 18296722
    5. The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: I. Characterization with APRR1-overexpressing plants. Makino S, et al. Plant Cell Physiol, 2002 Jan. PMID 11828023

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PIL1 plays a role as a decelerator of growth during early shade avoidance.
      Title: PIL1 participates in a negative feedback loop that regulates its own gene expression in response to shade.
    2. These data suggest that the second-phase decline in robustness of PIL1 derepression is an indirect consequence of the global developmental transition from the etiolated to the de-etiolated state.
      Title: Phytochrome-regulated PIL1 derepression is developmentally modulated.
    3. PIL1 is necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related PSEUDO-RESPONSE REGULATOR9 gene, indicating a regulatory function in the early phy-induced transcriptional network.
      Title: Functional profiling reveals that only a small number of phytochrome-regulated early-response genes in Arabidopsis are necessary for optimal deetiolation.
    4. PIL1 is a direct target of phytochrome signaling and plays a key role in response to long-term shade in Arabidopsis.
      Title: Identification of primary target genes of phytochrome signaling. Early transcriptional control during shade avoidance responses in Arabidopsis.
    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_001337226.1
    NM_001337227.1
    NM_130265.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within callus formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within red or far-red light signaling pathway IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within red or far-red light signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within shade avoidance IEP
    Inferred from Expression Pattern
    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
    phytochrome interacting factor 3-like 1
    NP_182220.2
    • phytochrome interacting factor 3-like 1 (PIL1); FUNCTIONS IN: sequence-specific DNA binding transcription factor activity; INVOLVED IN: shade avoidance, red or far-red light signaling pathway, regulation of transcription; LOCATED IN: nucleus; CONTAINS InterPro DOMAIN/s: Helix-loop-helix DNA-binding domain (InterPro:IPR001092), Helix-loop-helix DNA-binding (InterPro:IPR011598); BEST Arabidopsis thaliana protein match is: phytochrome interacting factor 3-like 2 (TAIR:AT3G62090.2); 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).

    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_003071.7 Reference assembly

      Range
      19295431..19297858 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_130265.4 → NP_182220.2  phytochrome interacting factor 3-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_182220.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O80727, Q84WY4, Q8L5W8
      UniProtKB/TrEMBL
      A0A178VNL3, A0A5S9X7M8
      Conserved Domains (1) summary
      cd11445
      Location:229 → 292
      bHLH_AtPIF_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana phytochrome interacting factors (PIFs) and similar proteins

    2. NM_001337226.1 → NP_001323544.1  phytochrome interacting factor 3-like 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AXC9

    3. NM_001337227.1 → NP_001323543.1  phytochrome interacting factor 3-like 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AXH8
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8L5W8.1

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