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    PIL2 phytochrome interacting factor 3-like 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 825382, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PIL2
    Official Full Name
    phytochrome interacting factor 3-like 2
    Primary source
    TAIR:AT3G62090
    Locus tag
    AT3G62090
    See related
    Araport:AT3G62090
    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
    phytochrome interacting factor 3-like 2; PHYTOCHROME-INTERACTING FACTOR 6; PIF6
    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 PIL2 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    6
    Sequence:
    Chromosome: 3; NC_003074.8 (22988547..22990709, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene SNF7 family protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene indole-3-acetic acid inducible 30 Neighboring gene Pectin lyase-like superfamily protein

    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. A role for an alternative splice variant of PIF6 in the control of Arabidopsis primary seed dormancy. Penfield S, et al. Plant Mol Biol, 2010 May. PMID 19911288
    2. The Association Kinetics Encode the Light Dependence of Arabidopsis Phytochrome B Interactions. Golonka D, et al. J Mol Biol, 2020 Jul 24. PMID 32534065
    3. Light control of plasma membrane recruitment using the Phy-PIF system. Toettcher JE, et al. Methods Enzymol, 2011. PMID 21601096, Free PMC Article
    4. Polypyrimidine tract binding protein homologs from Arabidopsis are key regulators of alternative splicing with implications in fundamental developmental processes. Rühl C, et al. Plant Cell, 2012 Nov. PMID 23192226, Free PMC Article
    5. Soluble carbohydrates regulate auxin biosynthesis via PIF proteins in Arabidopsis. Sairanen I, et al. Plant Cell, 2012 Dec. PMID 23209113, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Association Kinetics Encode the Light Dependence of Arabidopsis Phytochrome B Interactions.
      Title: The Association Kinetics Encode the Light Dependence of Arabidopsis Phytochrome B Interactions.
    2. PTB misexpression changes Alternative splicing (AS) of PHYTOCHROME INTERACTING FACTOR6, coinciding with altered rates of abscisic acid-dependent seed germination.
      Title: Polypyrimidine tract binding protein homologs from Arabidopsis are key regulators of alternative splicing with implications in fundamental developmental processes.
    3. The ability of Glc to induce IAA biosynthesis was upregulated in the pif1 pif3 pif4 pif5 quadruple mutant line compared with the wild type.
      Title: Soluble carbohydrates regulate auxin biosynthesis via PIF proteins in Arabidopsis.
    4. PIF6 is expressed strongly during seed development, and two splice variants exist.
      Title: A role for an alternative splice variant of PIF6 in the control of Arabidopsis primary seed dormancy.
    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_001084860.1
    NM_001203231.1
    NM_001340137.1
    NM_116074.2

    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 red or far-red light signaling pathway IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to abscisic acid IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to salt 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 2
    NP_001078329.1
    • phytochrome interacting factor 3-like 2 (PIL2); FUNCTIONS IN: protein binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: red or far-red light signaling pathway; LOCATED IN: nucleus; EXPRESSED IN: stem, hypocotyl, root; 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 1 (TAIR:AT2G46970.1); Has 1468 Blast hits to 1462 proteins in 52 species: Archae - 0; Bacteria - 0; Metazoa - 3; Fungi - 0; Plants - 1465; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).
    NP_001190160.1
    • phytochrome interacting factor 3-like 2 (PIL2); FUNCTIONS IN: protein binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: red or far-red light signaling pathway; EXPRESSED IN: stem, hypocotyl, root; BEST Arabidopsis thaliana protein match is: phytochrome interacting factor 3-like 1 (TAIR:AT2G46970.1).
    NP_191768.2
    • phytochrome interacting factor 3-like 2 (PIL2); FUNCTIONS IN: protein binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: red or far-red light signaling pathway; LOCATED IN: nucleus; EXPRESSED IN: stem, hypocotyl, root; 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 1 (TAIR:AT2G46970.1); Has 1467 Blast hits to 1461 proteins in 52 species: Archae - 0; Bacteria - 0; Metazoa - 3; Fungi - 0; Plants - 1464; Viruses - 0; Other Eukaryotes - 0 (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
      22988547..22990709 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001203231.1 → NP_001190160.1  phytochrome interacting factor 3-like 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190160.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      C0SVF8, F4IX36

    2. NM_116074.2 → NP_191768.2  phytochrome interacting factor 3-like 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_191768.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654FJY0, C0SVF8
      Conserved Domains (1) summary
      cd11445
      Location:171 → 234
      bHLH_AtPIF_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana phytochrome interacting factors (PIFs) and similar proteins

    3. NM_001084860.1 → NP_001078329.1  phytochrome interacting factor 3-like 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078329.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A8MSC2, Q8L5W7, Q9M1R5
      UniProtKB/TrEMBL
      A0A178VFI3, A0A5S9XNS5, C0SVF8
      Conserved Domains (1) summary
      cd11445
      Location:188 → 251
      bHLH_AtPIF_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana phytochrome interacting factors (PIFs) and similar proteins

    4. NM_001340137.1 → NP_001327149.1  phytochrome interacting factor 3-like 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LRF0, C0SVF8
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8L5W7.1

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