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    SMP2 Pre-mRNA splicing Prp18-interacting factor [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829866, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SMP2
    Official Full Name
    Pre-mRNA splicing Prp18-interacting factor
    Primary source
    TAIR:AT4G37120
    Locus tag
    AT4G37120
    See related
    Araport:AT4G37120
    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
    AP22.39; AP22_39; SWELLMAP 2
    Summary
    Encodes a zinc finger containing protein similar to step II splicing factors that is similar to SMP1. SMP2 is also reduced in SMP1 epigenetic alleles; plants make smaller organs having reduced cell numbers but increased cell size.
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    Genomic context

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    See SMP2 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    8
    Sequence:
    Chromosome: 4; NC_003075.7 (17486516..17489354)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Pyridoxal phosphate (PLP)-dependent transferases superfamily protein Neighboring gene Zinc-finger domain of monoamine-oxidase A repressor R1 Neighboring gene hydroxyproline-rich glycoprotein family protein Neighboring gene alpha/beta-Hydrolases superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. SWELLMAP 2, a phyB-Interacting Splicing Factor, Negatively Regulates Seedling Photomorphogenesis in Arabidopsis. Yan T, et al. Front Plant Sci, 2022. PMID 35222493, Free PMC Article
    2. Identification of an Arabidopsis unknown small membrane protein targeted to mitochondria, chloroplasts, and peroxisomes. Abu-Abied M, et al. Protoplasma, 2009 Jul. PMID 19283443
    3. The recessive epigenetic swellmap mutation affects the expression of two step II splicing factors required for the transcription of the cell proliferation gene STRUWWELPETER and for the timing of cell cycle arrest in the Arabidopsis leaf. Clay NK, et al. Plant Cell, 2005 Jul. PMID 15937226, Free PMC Article
    4. A Conserved Interaction between SKIP and SMP1/2 Aids in Recruiting the Second-Step Splicing Factors to the Spliceosome in Arabidopsis. Liu L, et al. Mol Plant, 2016 Dec 5. PMID 27693673
    5. Mapping the signaling network of BIN2 kinase using TurboID-mediated biotin labeling and phosphoproteomics. Kim TW, et al. Plant Cell, 2023 Mar 15. PMID 36660928, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Study shows a conserved Interaction between SKIP and SMP1/2 Aids in Recruiting the Second-Step Splicing Factors to the Spliceosome in Arabidopsis.
      Title: A Conserved Interaction between SKIP and SMP1/2 Aids in Recruiting the Second-Step Splicing Factors to the Spliceosome in Arabidopsis.
    2. Colocalization studies with green fluorescent protein and red fluorescent protein chimeras revealed SMP2 colocalization with chloroplasts, peroxisomes, and mitochondria.
      Title: Identification of an Arabidopsis unknown small membrane protein targeted to mitochondria, chloroplasts, and peroxisomes.
    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_119875.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables pre-mRNA 3'-splice site binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded RNA binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within alternative respiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of photomorphogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of cell population proliferation IGI
    Inferred from Genetic Interaction
    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
    Pre-mRNA splicing Prp18-interacting factor
    NP_568017.1
    • SWELLMAP 2 (SMP2); CONTAINS InterPro DOMAIN/s: Zinc finger, CCHC-type (InterPro:IPR001878), Pre-mRNA splicing Prp18-interacting factor (InterPro:IPR021715); BEST Arabidopsis thaliana protein match is: Pre-mRNA splicing Prp18-interacting factor (TAIR:AT1G65660.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (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_003075.7 Reference assembly

      Range
      17486516..17489354
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119875.4 → NP_568017.1  Pre-mRNA splicing Prp18-interacting factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568017.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O23174, Q93ZP2
      UniProtKB/TrEMBL
      A0A178UW38, A0A5S9XZD7
      Conserved Domains (1) summary
      pfam11708
      Location:136 → 405
      Slu7; Pre-mRNA splicing Prp18-interacting factor
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O23174.3

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