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    PRP40A pre-mRNA-processing protein 40A [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 841057, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PRP40A
    Official Full Name
    pre-mRNA-processing protein 40A
    Primary source
    TAIR:AT1G44910
    Locus tag
    AT1G44910
    See related
    Araport:AT1G44910
    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
    ATPRP40A; F27F5.2; pre-mRNA-processing protein 40A
    Summary
    Binds the carboxyl-terminal domain (CTD) of the largest subunit of RNA polymerase II and functions as a scaffold for RNA processing machineries.
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    Genomic context

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    See PRP40A in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    28
    Sequence:
    Chromosome: 1; NC_003070.9 (16975604..16982965)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene minichromosone maintenance protein Neighboring gene minichromosome maintenance (MCM2/3/5) family protein Neighboring gene uncharacterized protein Neighboring gene pseudo Neighboring gene ncRNA Neighboring gene ncRNA

    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. Arabidopsis thaliana PRP40s are RNA polymerase II C-terminal domain-associating proteins. Kang CH, et al. Arch Biochem Biophys, 2009 Apr 1. PMID 19467629
    2. Purification of a plant mediator from Arabidopsis thaliana identifies PFT1 as the Med25 subunit. Bäckström S, et al. Mol Cell, 2007 Jun 8. PMID 17560376
    3. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001123966.1
    NM_103573.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA polymerase binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA cis splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of mediator complex 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
    pre-mRNA-processing protein 40A
    NP_001117438.1
    • pre-mRNA-processing protein 40A (PRP40A); CONTAINS InterPro DOMAIN/s: FF domain (InterPro:IPR002713), WW/Rsp5/WWP (InterPro:IPR001202); BEST Arabidopsis thaliana protein match is: pre-mRNA-processing protein 40B (TAIR:AT3G19670.1); 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).
    NP_175113.2
    • pre-mRNA-processing protein 40A (PRP40A); CONTAINS InterPro DOMAIN/s: FF domain (InterPro:IPR002713), WW/Rsp5/WWP (InterPro:IPR001202); BEST Arabidopsis thaliana protein match is: pre-mRNA-processing protein 40B (TAIR:AT3G19670.1); Has 113757 Blast hits to 61097 proteins in 2531 species: Archae - 390; Bacteria - 9660; Metazoa - 51291; Fungi - 12468; Plants - 6867; Viruses - 622; Other Eukaryotes - 32459 (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
      16975604..16982965
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_103573.4 → NP_175113.2  pre-mRNA-processing protein 40A [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_175113.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B3H7M9, B6EUA9, B9DFP8, Q9LPD8, Q9MAL4
      UniProtKB/TrEMBL
      A0A5S9WM94, A0A7G2E0U4
      Conserved Domains (2) summary
      COG5104
      Location:185 → 810
      PRP40; Splicing factor [RNA processing and modification]
      PRK10263
      Location:71 → 336
      PRK10263; DNA translocase FtsK; Provisional

    2. NM_001123966.1 → NP_001117438.1  pre-mRNA-processing protein 40A [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001117438.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WMS5
      Conserved Domains (3) summary
      COG5104
      Location:185 → 810
      PRP40; Splicing factor [RNA processing and modification]
      cd00201
      Location:188 → 217
      WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
      pfam01846
      Location:406 → 455
      FF; FF domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B6EUA9.1

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