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    CPSF30 cleavage and polyadenylation specificity factor 30 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 839925, updated on 18-Sep-2024

    Summary

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    Official Symbol
    CPSF30
    Official Full Name
    cleavage and polyadenylation specificity factor 30
    Primary source
    TAIR:AT1G30460
    Locus tag
    AT1G30460
    See related
    Araport:AT1G30460
    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
    ARABIDOPSIS THALIANA CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 30; ATCPSF30; cleavage and polyadenylation specificity factor 30; F26G16.6; F26G16_6
    Summary
    Encodes AtCPSF30, the 30-KDa subunit of cleavage and polyadenylation specificity factor. AtCPSF30 is a probable processing endonuclease. Nucleus-localized RNA binding protein capable of interacting with itself and with calmodulin. Its RNA-binding activity is inhibited by calmodulin in a calcium-dependent fashion.
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    Genomic context

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    See CPSF30 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    8
    Sequence:
    Chromosome: 1; NC_003070.9 (10770813..10775428, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene cation-chloride co-transporter 1 Neighboring gene cyclin/Brf1-like TBP-binding domain-containing protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene SIT4 phosphatase-associated 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. A disulfide linkage in a CCCH zinc finger motif of an Arabidopsis CPSF30 ortholog. Addepalli B, et al. FEBS Lett, 2010 Nov 5. PMID 20888817
    2. Calmodulin interacts with and regulates the RNA-binding activity of an Arabidopsis polyadenylation factor subunit. Delaney KJ, et al. Plant Physiol, 2006 Apr. PMID 16500995, Free PMC Article
    3. A polyadenylation factor subunit implicated in regulating oxidative signaling in Arabidopsis thaliana. Zhang J, et al. PLoS One, 2008 Jun 11. PMID 18545667, Free PMC Article
    4. Genome-wide control of polyadenylation site choice by CPSF30 in Arabidopsis. Thomas PE, et al. Plant Cell, 2012 Nov. PMID 23136375, Free PMC Article
    5. The Polyadenylation Factor Subunit CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR30: A Key Factor of Programmed Cell Death and a Regulator of Immunity in Arabidopsis. Bruggeman Q, et al. Plant Physiol, 2014 Jun. PMID 24706550, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CPSF30-L: A direct connection between mRNA polyadenylation and m(6)A RNA modification in plants.
      Title: CPSF30-L: A direct connection between mRNA polyadenylation and m(6)A RNA modification in plants.
    2. The 65 kDa protein encoded by CPSF30-L mediates nitrate signaling in part by regulating NRT1.1 expression.
      Title: The Arabidopsis CPSF30-L gene plays an essential role in nitrate signaling and regulates the nitrate transceptor gene NRT1.1.
    3. CPSF30 mutant incapable of interacting with calmodulin has reduced fertility, reduced lateral root formation, and altered sensitivities to oxidative stress.
      Title: Integration of developmental and environmental signals via a polyadenylation factor in Arabidopsis.
    4. review of role in mRNA polyadenylation and cellular signaling
      Title: The Arabidopsis polyadenylation factor subunit CPSF30 as conceptual link between mRNA polyadenylation and cellular signaling.
    5. CPSF30 mediates alternative polyadenylation in Arabidopsis.
      Title: Genome-wide control of polyadenylation site choice by CPSF30 in Arabidopsis.
    6. the presence of a disulfide linkage in the endonuclease motif of AtCPSF30 protein
      Title: A disulfide linkage in a CCCH zinc finger motif of an Arabidopsis CPSF30 ortholog.
    7. results suggest that the nuclear CPSF complex in plants is a dynamic one, and that the interactions between AtCPSF30 and other CPSF subunits are different from those existing in other eukaryotes.
      Title: Distinctive interactions of the Arabidopsis homolog of the 30 kD subunit of the cleavage and polyadenylation specificity factor (AtCPSF30) with other polyadenylation factor subunits.
    8. Results indicate that AtCPSF30 is a probable processing endonuclease, and that its action is coordinated through its interaction with Fip1.
      Title: A novel endonuclease activity associated with the Arabidopsis ortholog of the 30-kDa subunit of cleavage and polyadenylation specificity factor.
    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_001332901.1
    NM_001332902.1
    NM_102782.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables calmodulin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within RNA processing TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in mRNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of plant-type hypersensitive response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of programmed cell death IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of mRNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of salicylic acid mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to oxidative stress IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of mRNA cleavage and polyadenylation specificity factor complex ISS
    Inferred from Sequence or Structural Similarity
    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
    cleavage and polyadenylation specificity factor 30
    NP_001319113.1
    • cleavage and polyadenylation specificity factor 30 (CPSF30); CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571); BEST Arabidopsis thaliana protein match is: Zinc finger C-x8-C-x5-C-x3-H type family protein (TAIR:AT1G21580.1); Has 1436 Blast hits to 1371 proteins in 231 species: Archae - 0; Bacteria - 2; Metazoa - 545; Fungi - 336; Plants - 156; Viruses - 9; Other Eukaryotes - 388 (source: NCBI BLink).
    NP_174334.2
    • cleavage and polyadenylation specificity factor 30 (CPSF30); CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), YTH domain (InterPro:IPR007275); BEST Arabidopsis thaliana protein match is: YTH family protein (TAIR:AT4G11970.3); Has 12035 Blast hits to 8168 proteins in 547 species: Archae - 4; Bacteria - 678; Metazoa - 8047; Fungi - 1112; Plants - 779; Viruses - 126; Other Eukaryotes - 1289 (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
      10770813..10775428 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_102782.4 → NP_174334.2  cleavage and polyadenylation specificity factor 30 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_174334.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A9LNK9, Q9S9Q5, Q9S9Q6
      UniProtKB/TrEMBL
      A0A5S9WGT4, A0A654EFV1, A0A7G2DZ26
      Conserved Domains (2) summary
      COG5084
      Location:59 → 138
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
      cd21134
      Location:238 → 372
      YTH; YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily

    2. NM_001332901.1 → NP_001319113.1  cleavage and polyadenylation specificity factor 30 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A2H1ZEB9

    3. NM_001332902.1 → NP_001321474.1  cleavage and polyadenylation specificity factor 30 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WFS9, A0A1P8AQZ1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A9LNK9.1

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