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    SNL1 SIN3-like 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 821265, updated on 15-Oct-2023

    Summary

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    Gene symbol
    SNL1
    Gene description
    SIN3-like 1
    Primary source
    Araport:AT3G01320
    Locus tag
    AT3G01320
    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
    SIN3-like 1; T22N4.5; T22N4_5
    Summary
    Encodes SIN3-like 1, a homolog of the transcriptional repressor SIN3 (AT1G24190).
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    22
    Sequence:
    Chromosome: 3; NC_003074.8 (106294..113679)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene miscRNA Neighboring gene uncharacterized protein Neighboring gene ECA1-like gametogenesis related family protein Neighboring gene ECA1 gametogenesis related family 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. Arabidopsis paired amphipathic helix proteins SNL1 and SNL2 redundantly regulate primary seed dormancy via abscisic acid-ethylene antagonism mediated by histone deacetylation. Wang Z, et al. Plant Cell, 2013 Jan. PMID 23371947, Free PMC Article
    2. 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
    3. Arabidopsis RPD3-like histone deacetylases form multiple complexes involved in stress response. Feng C, et al. J Genet Genomics, 2021 May 20. PMID 34144927
    4. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    5. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SNL1 and SNL2 regulate seed dormancy by mediating the abscisic acid (ABA)-ethylene antagonism in Arabidopsis. SNL1 and SNL2 could represent a cross-link point of the ABA and ethylene pathways in the regulation of seed dormancy.
      Title: Arabidopsis paired amphipathic helix proteins SNL1 and SNL2 redundantly regulate primary seed dormancy via abscisic acid-ethylene antagonism mediated by histone deacetylation.
    2. full-length SNL1 was shown to repress transcription in a histone-deacetylase-dependent manner, demonstrating the conserved nature of SIN3 function
      Title: PAH-domain-specific interactions of the Arabidopsis transcription coregulator SIN3-LIKE1 (SNL1) with telomere-binding protein 1 and ALWAYS EARLY2 Myb-DNA binding factors.
    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_001202860.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Sin3-type complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    SIN3-like 1
    NP_001189789.1
    • SIN3-like 1 (SNL1); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 2 (TAIR:AT5G15020.2).
    NP_186781.4
    • SIN3-like 1 (SNL1); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 2 (TAIR:AT5G15020.2); Has 8924 Blast hits to 4656 proteins in 481 species: Archae - 44; Bacteria - 2736; Metazoa - 2712; Fungi - 1300; Plants - 581; Viruses - 181; Other Eukaryotes - 1370 (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
      106294..113679
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_110998.5 → NP_186781.4  SIN3-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_186781.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SRH9
      UniProtKB/TrEMBL
      A0A178VAF5, A0A654FDK6
      Conserved Domains (5) summary
      smart00761
      Location:467 → 563
      HDAC_interact; Histone deacetylase (HDAC) interacting
      COG5602
      Location:13 → 672
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
      pfam02671
      Location:74 → 118
      PAH; Paired amphipathic helix repeat
      pfam16879
      Location:1100 → 1343
      Sin3a_C; C-terminal domain of Sin3a protein
      cl11968
      Location:46 → 144
      harmonin_N_like; N-terminal protein-binding module of harmonin and similar domains, also known as HHD (harmonin homology domain)

    2. NM_001202860.2 → NP_001189789.1  SIN3-like 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189789.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VAF5, A0A654FDK6, F4JAQ8
      Conserved Domains (5) summary
      smart00761
      Location:455 → 551
      HDAC_interact; Histone deacetylase (HDAC) interacting
      COG5602
      Location:13 → 660
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
      pfam02671
      Location:74 → 118
      PAH; Paired amphipathic helix repeat
      pfam16879
      Location:1088 → 1331
      Sin3a_C; C-terminal domain of Sin3a protein
      cl11968
      Location:46 → 144
      harmonin_N_like; N-terminal protein-binding module of harmonin and similar domains, also known as HHD (harmonin homology domain)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SRH9.2

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