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    PRP40B pre-mRNA-processing protein 40B [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 821504, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PRP40B
    Official Full Name
    pre-mRNA-processing protein 40B
    Primary source
    TAIR:AT3G19670
    Locus tag
    AT3G19670
    See related
    Araport:AT3G19670
    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
    ATPRP40B; pre-mRNA-processing protein 40B
    Summary
    Binds the carboxyl-terminal domain (CTD) of the largest subunit of RNA polymerase II and functions as a scaffold for RNA processing machineries. Ubiquitously expressed and localize to the nucleus.
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    Genomic context

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    See PRP40B in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    29
    Sequence:
    Chromosome: 3; NC_003074.8 (6827986..6837505, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene hypothetical protein (DUF1005) Neighboring gene CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein Neighboring gene ncRNA

    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. A Genetic Screen for Pre-mRNA Splicing Mutants of Arabidopsis thaliana Identifies Putative U1 snRNP Components RBM25 and PRP39a. Kanno T, et al. Genetics, 2017 Dec. PMID 28971960, Free PMC Article
    2. Arabidopsis thaliana PRP40s are RNA polymerase II C-terminal domain-associating proteins. Kang CH, et al. Arch Biochem Biophys, 2009 Apr 1. PMID 19467629
    3. MAPK target networks in Arabidopsis thaliana revealed using functional protein microarrays. Popescu SC, et al. Genes Dev, 2009 Jan 1. PMID 19095804, Free PMC Article
    4. 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_112857.6

    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
    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
    pre-mRNA-processing protein 40B
    NP_188601.4
    • pre-mRNA-processing protein 40B (PRP40B); FUNCTIONS IN: RNA polymerase binding; INVOLVED IN: RNA splicing; LOCATED IN: nucleus; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: FF domain (InterPro:IPR002713), WW/Rsp5/WWP (InterPro:IPR001202); BEST Arabidopsis thaliana protein match is: pre-mRNA-processing protein 40A (TAIR:AT1G44910.1); Has 12458 Blast hits to 9290 proteins in 504 species: Archae - 82; Bacteria - 460; Metazoa - 6303; Fungi - 1179; Plants - 857; Viruses - 9; Other Eukaryotes - 3568 (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
      6827986..6837505 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001338415.1 → NP_001325769.1  pre-mRNA-processing protein 40B [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A1I9LM86, F4JCC1, Q9LJM8
      UniProtKB/TrEMBL
      A0A654F8T5

    2. NM_001338414.1 → NP_001325767.1  pre-mRNA-processing protein 40B [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A1I9LM86, F4JCC1, Q9LJM8
      UniProtKB/TrEMBL
      A0A654F8T5

    3. NM_001338416.1 → NP_001325768.1  pre-mRNA-processing protein 40B [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LM87, A0A654F8T5

    4. NM_112857.6 → NP_188601.4  pre-mRNA-processing protein 40B [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_188601.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A1I9LM86, F4JCC1, Q9LJM8
      UniProtKB/TrEMBL
      A0A654F8T5
      Conserved Domains (4) summary
      COG5104
      Location:200 → 760
      PRP40; Splicing factor [RNA processing and modification]
      cd00201
      Location:207 → 236
      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:452 → 501
      FF; FF domain
      pfam08648
      Location:863 → 988
      DUF1777; Protein of unknown function (DUF1777)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F4JCC1.1

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