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    SHN3 Integrase-type DNA-binding superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832611, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SHN3
    Official Full Name
    Integrase-type DNA-binding superfamily protein
    Primary source
    TAIR:AT5G25390
    Locus tag
    AT5G25390
    See related
    Araport:AT5G25390
    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
    F18G18.130; F18G18_130; shine2; shine3
    Summary
    encodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.
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    Genomic context

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    See SHN3 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    2
    Sequence:
    Chromosome: 5; NC_003076.8 (8820458..8822062)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene phospholipase D alpha 3 Neighboring gene cyclin a2;1 Neighboring gene Nucleotide-sugar transporter family protein Neighboring gene transmembrane protein, putative (DUF239)

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. SHINE transcription factors act redundantly to pattern the archetypal surface of Arabidopsis flower organs. Shi JX, et al. PLoS Genet, 2011 May. PMID 21637781, Free PMC Article
    2. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Riechmann JL, et al. Science, 2000 Dec 15. PMID 11118137
    3. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    4. Evidence for network evolution in an Arabidopsis interactome map. Arabidopsis Interactome Mapping Consortium. Science, 2011 Jul 29. PMID 21798944, Free PMC Article
    5. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Silencing SHINE clade genes (SHN1/SHN2/SHN3) reduces flower cutin load and modifies petal cell wall structure.
      Title: SHINE transcription factors act redundantly to pattern the archetypal surface of Arabidopsis flower organs.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    NM_122448.4
    NM_180742.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Integrase-type DNA-binding superfamily protein
    NP_197921.1
    • shine2 (SHN2); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: mitochondrion, nucleus; EXPRESSED IN: 11 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: DNA-binding, integrase-type (InterPro:IPR016177), Pathogenesis-related transcriptional factor/ERF, DNA-binding (InterPro:IPR001471); BEST Arabidopsis thaliana protein match is: Integrase-type DNA-binding superfamily protein (TAIR:AT5G11190.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).
    NP_851073.1
    • shine2 (SHN2); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: mitochondrion, nucleus; EXPRESSED IN: 11 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage; CONTAINS InterPro DOMAIN/s: DNA-binding, integrase-type (InterPro:IPR016177), Pathogenesis-related transcriptional factor/ERF, DNA-binding (InterPro:IPR001471); BEST Arabidopsis thaliana protein match is: Integrase-type DNA-binding superfamily protein (TAIR:AT5G11190.1); Has 5652 Blast hits to 5519 proteins in 248 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 5647; Viruses - 0; Other Eukaryotes - 5 (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_003076.8 Reference assembly

      Range
      8820458..8822062
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_122448.4 → NP_197921.1  Integrase-type DNA-binding superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197921.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q3E958, Q8GWK8
      UniProtKB/TrEMBL
      A0A178USD7, A0A5S9Y7I4, A0A654G404
      Conserved Domains (1) summary
      smart00380
      Location:6 → 69
      AP2; DNA-binding domain in plant proteins such as APETALA2 and EREBPs

    2. NM_180742.1 → NP_851073.1  Integrase-type DNA-binding superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851073.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654G404
      Conserved Domains (1) summary
      smart00380
      Location:6 → 66
      AP2; DNA-binding domain in plant proteins such as APETALA2 and EREBPs
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3E958.1

    Gene LinkOut

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