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    CLPS3 CLP-similar protein 3 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 819626, updated on 18-Sep-2024

    Summary

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    Official Symbol
    CLPS3
    Official Full Name
    CLP-similar protein 3
    Primary source
    TAIR:AT3G04680
    Locus tag
    AT3G04680
    See related
    Araport:AT3G04680
    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
    CLP-similar protein 3; F7O18.15; F7O18_15
    Summary
    Encodes a nuclear protein that functions in mRNA processing. Mutations in this gene cause embryo lethality and reduced transmission through the female gametophyte. Over-expression of a CLPS3:TAP protein changes the relative levels of two alternatively processed FCA transcripts. It also causes abnormal phyllotaxy and flower development, early flowering under long and short days, and increased levels of CUC1 and WUS expression.
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    Genomic context

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    See CLPS3 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    8
    Sequence:
    Chromosome: 3; NC_003074.8 (1269722..1273004, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene F-box and associated interaction domains-containing protein Neighboring gene WRKY DNA-binding protein 39 Neighboring gene Malectin/receptor-like protein kinase family protein Neighboring gene carboxylate clamp-TPR protein (DUF1685) Neighboring gene ankyrin repeat family protein Neighboring gene miscRNA

    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 PCFS4, a homologue of yeast polyadenylation factor Pcf11p, regulates FCA alternative processing and promotes flowering time. Xing D, et al. Plant J, 2008 Jun. PMID 18298670
    2. Arabidopsis CLP1-SIMILAR PROTEIN3, an ortholog of human polyadenylation factor CLP1, functions in gametophyte, embryo, and postembryonic development. Xing D, et al. Plant Physiol, 2008 Dec. PMID 18971429, Free PMC Article
    3. Unique features of plant cleavage and polyadenylation specificity factor revealed by proteomic studies. Zhao H, et al. Plant Physiol, 2009 Nov. PMID 19748916, Free PMC Article
    4. Arabidopsis mRNA polyadenylation machinery: comprehensive analysis of protein-protein interactions and gene expression profiling. Hunt AG, et al. BMC Genomics, 2008 May 14. PMID 18479511, 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. CLPS3 has a role in the processing of pre-mRNAs encoded by a distinct subset of genes that are important in plant development. [CLPS3]
      Title: Arabidopsis CLP1-SIMILAR PROTEIN3, an ortholog of human polyadenylation factor CLP1, functions in gametophyte, embryo, and postembryonic development.
    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_001337539.1
    NM_111340.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables polynucleotide 5'-hydroxyl-kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within flower development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within phyllome development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vegetative to reproductive phase transition of meristem IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of mRNA cleavage factor complex IPI
    Inferred from Physical Interaction
    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
    CLP-similar protein 3
    NP_001319471.1
    • CLP-similar protein 3 (CLPS3); CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655); BEST Arabidopsis thaliana protein match is: CLP1-similar protein 5 (TAIR:AT5G39930.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_187119.1
    • CLP-similar protein 3 (CLPS3); CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655); BEST Arabidopsis thaliana protein match is: CLP1-similar protein 5 (TAIR:AT5G39930.1); Has 879 Blast hits to 856 proteins in 281 species: Archae - 107; Bacteria - 16; Metazoa - 235; Fungi - 297; Plants - 73; Viruses - 0; Other Eukaryotes - 151 (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
      1269722..1273004 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001337540.1 → NP_001327497.1  CLP-similar protein 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SR06
      UniProtKB/TrEMBL
      A0A178VJP2, A0A5S9X918, A0A7G2EME8
      Conserved Domains (2) summary
      COG5623
      Location:23 → 442
      CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:137 → 324
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    2. NM_001337539.1 → NP_001319471.1  CLP-similar protein 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SR06
      UniProtKB/TrEMBL
      A0A178VJP2, A0A5S9X918, A0A7G2EME8
      Conserved Domains (2) summary
      COG5623
      Location:23 → 442
      CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:137 → 324
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    3. NM_111340.3 → NP_187119.1  CLP-similar protein 3 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_187119.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SR06
      UniProtKB/TrEMBL
      A0A178VJP2, A0A5S9X918, A0A7G2EME8
      Conserved Domains (2) summary
      COG5623
      Location:23 → 442
      CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
      pfam16575
      Location:137 → 324
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SR06.1

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