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    SNL5 SIN3-like 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 842283, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SNL5
    Official Full Name
    SIN3-like 5
    Primary source
    TAIR:AT1G59890
    Locus tag
    AT1G59890
    See related
    Araport:AT1G59890
    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
    F23H11.20; F23H11_20; SIN3-like 5
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    Genomic context

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    See SNL5 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    20
    Sequence:
    Chromosome: 1; NC_003070.9 (22043643..22051114)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene tRNA-Pro Neighboring gene uncharacterized protein Neighboring gene pyruvate dehydrogenase complex E1 alpha subunit Neighboring gene Actin-binding FH2 (formin homology 2) family protein Neighboring gene MADS-box family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Arabidopsis RPD3-like histone deacetylases form multiple complexes involved in stress response. Feng C, et al. J Genet Genomics, 2021 May 20. PMID 34144927
    2. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    3. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001198338.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of Sin3-type complex 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 5
    NP_001185267.1
    • SIN3-like 5 (SNL5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 6 (TAIR:AT1G10450.1).
    NP_001185268.1
    • SIN3-like 5 (SNL5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 6 (TAIR:AT1G10450.1).
    NP_001185269.1
    • SIN3-like 5 (SNL5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 6 (TAIR:AT1G10450.1).
    NP_176197.3
    • SIN3-like 5 (SNL5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Histone deacetylase interacting (InterPro:IPR013194), Paired amphipathic helix (InterPro:IPR003822); BEST Arabidopsis thaliana protein match is: SIN3-like 6 (TAIR:AT1G10450.1); Has 2059 Blast hits to 826 proteins in 195 species: Archae - 0; Bacteria - 5; Metazoa - 811; Fungi - 648; Plants - 432; Viruses - 0; Other Eukaryotes - 163 (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_003070.9 Reference assembly

      Range
      22043643..22051114
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001198339.2 → NP_001185268.1  SIN3-like 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185268.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WIX5, F4IEM8
      Conserved Domains (1) summary
      COG5602
      Location:45 → 1118
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]

    2. NM_104681.6 → NP_176197.3  SIN3-like 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_176197.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IEM9, Q9XIE1
      UniProtKB/TrEMBL
      A0A178WIU2
      Conserved Domains (1) summary
      COG5602
      Location:45 → 1113
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]

    3. NM_001198340.2 → NP_001185269.1  SIN3-like 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185269.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9WR25, A0A654EJL5, F4IEM7
      Conserved Domains (1) summary
      COG5602
      Location:45 → 1113
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]

    4. NM_001198338.1 → NP_001185267.1  SIN3-like 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185267.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WIU2, F4IEN0
      Conserved Domains (4) summary
      COG5602
      Location:45 → 1109
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
      pfam02671
      Location:62 → 106
      PAH; Paired amphipathic helix repeat
      pfam08295
      Location:318 → 406
      Sin3_corepress; Sin3 family co-repressor
      pfam16879
      Location:867 → 1111
      Sin3a_C; C-terminal domain of Sin3a protein
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9XIE1.3

    Gene LinkOut

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