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    SE C2H2 zinc-finger protein SERRATE (SE) [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817252, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SE
    Official Full Name
    C2H2 zinc-finger protein SERRATE (SE)
    Primary source
    TAIR:AT2G27100
    Locus tag
    AT2G27100
    See related
    Araport:AT2G27100
    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
    SERRATE; T20P8.15; T20P8_15
    Summary
    Identified as a leaf form mutant by Redei having serrated leaves. Further analysis of the single loss of function allele indicated pleiotropic effects extending to many aspects of shoot development such as taller meristems, alterations in phase transition, phyllotaxy and branching. Encodes a single zinc finger containing protein that is expressed in meristems and organ primordia.
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    12
    Sequence:
    Chromosome: 2; NC_003071.7 (11572397..11576658)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene response regulator 13 Neighboring gene Late embryogenesis abundant (LEA) hydroxyproline-rich glycoprotein family Neighboring gene bZIP transcription factor (DUF630 and DUF632) Neighboring gene FAR1-related sequence 3 Neighboring gene DNA polymerase epsilon catalytic subunit

    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. An antisense intragenic lncRNA SEAIRa mediates transcriptional and epigenetic repression of SERRATE in Arabidopsis. Chen W, et al. Proc Natl Acad Sci U S A, 2023 Mar 7. PMID 36857348, Free PMC Article
    2. The SERRATE locus controls the formation of the early juvenile leaves and phase length in Arabidopsis. Clarke JH, et al. Plant J, 1999 Nov. PMID 10607301
    3. SERRATE coordinates shoot meristem function and leaf axial patterning in Arabidopsis. Grigg SP, et al. Nature, 2005 Oct 13. PMID 16222298
    4. SERRATE: a new player on the plant microRNA scene. Lobbes D, et al. EMBO Rep, 2006 Oct. PMID 16977334, Free PMC Article
    5. Simulations of virtual plants reveal a role for SERRATE in the response of leaf development to light in Arabidopsis thaliana. Chenu K, et al. New Phytol, 2007. PMID 17635222

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. An antisense intragenic lncRNA SEAIRa mediates transcriptional and epigenetic repression of SERRATE in Arabidopsis.
      Title: An antisense intragenic lncRNA SEAIRa mediates transcriptional and epigenetic repression of SERRATE in Arabidopsis.
    2. SERRATE interacts with the nuclear exosome targeting (NEXT) complex to degrade primary miRNA precursors in Arabidopsis.
      Title: SERRATE interacts with the nuclear exosome targeting (NEXT) complex to degrade primary miRNA precursors in Arabidopsis.
    3. fiery1, hyl1 and se interact and require miRNA precursor processing in Arabidopsis
      Title: Efficiency and precision of microRNA biogenesis modes in plants.
    4. Arabidopsis SE associated with more than 1000, mainly intronless, genes in a transcription-dependent manner.
      Title: Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes.
    5. direct interaction with SE is required for post-transcriptional inhibition of miRNA accumulation by CHR2 but not for its transcriptional activity
      Title: SWI2/SNF2 ATPase CHR2 remodels pri-miRNAs via Serrate to impede miRNA production.
    6. miRNA863-3p sequentially targets negative immune regulator atypical receptor-like pseudokinases and positive regulator SERRATE upon bacterial infection.
      Title: miRNA863-3p sequentially targets negative immune regulator ARLPKs and positive regulator SERRATE upon bacterial infection.
    7. Results show that HYL1 and SE directly interact with HIGLE to processes primary transcripts of MIRNA genes into mature miRNAs.
      Title: HIGLE is a bifunctional homing endonuclease that directly interacts with HYL1 and SERRATE in Arabidopsis thaliana.
    8. Further analysis revealed that the steady state level of HYL1 protein in plants under osmotic stress is dependent on the SnRK2 kinases. Additionally, our results suggest that the SnRK2 kinases physically associate with the miRNA processing components SE and HYL1 and can phosphorylate these proteins in vitro.
      Title: The SnRK2 kinases modulate miRNA accumulation in Arabidopsis.
    9. SERRATE and the nuclear cap-binding protein complex (AtCBC) cooperate in regulation of alternative splicing.
      Title: The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana.
    10. The results suggest that the interactions among SERRATE, DICER-LIKE 1 and RNA are a potential point for regulating pri-miRNA processing.
      Title: Dissecting the interactions of SERRATE with RNA and DICER-LIKE 1 in Arabidopsis microRNA precursor processing.
    Submit: New GeneRIF Correction See all GeneRIFs (18)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_128268.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    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 
    Process Evidence Code Pubs
    involved_in RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within primary miRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in primary miRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of adaxial/abaxial pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of meristem development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within shoot system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within ta-siRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of nuclear cap binding complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in nuclear dicing body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus HDA PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    C2H2 zinc-finger protein SERRATE (SE)
    NP_565635.1
    • SERRATE (SE); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 7 processes; LOCATED IN: cytosol, nuclear speck, nucleolus, nucleus, chloroplast; EXPRESSED IN: 27 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, C2H2-like (InterPro:IPR015880), Arsenite-resistance protein 2 (InterPro:IPR007042), Protein of unknown function DUF3546 (InterPro:IPR021933), Zinc finger, C2H2-type (InterPro:IPR007087); Has 5797 Blast hits to 4596 proteins in 474 species: Archae - 2; Bacteria - 583; Metazoa - 2822; Fungi - 981; Plants - 712; Viruses - 137; Other Eukaryotes - 560 (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
      11572397..11576658
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_128268.3 → NP_565635.1  C2H2 zinc-finger protein SERRATE (SE) [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565635.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q93W84, Q9ZVD0
      UniProtKB/TrEMBL
      A0A178VZD4, A0A5S9X1V1, A0A7G2ECS0
      Conserved Domains (2) summary
      pfam04959
      Location:436 → 634
      ARS2; Arsenite-resistance protein 2
      pfam12066
      Location:199 → 280
      DUF3546; Domain of unknown function (DUF3546)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ZVD0.2

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