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    Rprd1a regulation of nuclear pre-mRNA domain containing 1A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291736, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Rprd1aprovided by RGD
    Official Full Name
    regulation of nuclear pre-mRNA domain containing 1Aprovided by RGD
    Primary source
    RGD:1307374
    See related
    Ensembl:ENSRNOG00000016036 AllianceGenome:RGD:1307374
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    P15rs; RGD1307374
    Summary
    Predicted to enable RNA polymerase II complex binding activity and identical protein binding activity. Predicted to be involved in dephosphorylation of RNA polymerase II C-terminal domain and mRNA 3'-end processing. Predicted to be part of RNA polymerase II, holoenzyme. Orthologous to human RPRD1A (regulation of nuclear pre-mRNA domain containing 1A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 138.4), Kidney (RPKM 101.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    18p12
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (16066169..16114102, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (15791418..15839338, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (16450160..16497913, complement)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482998 Neighboring gene similar to human chromosome 18 open reading frame 21 Neighboring gene ribosomal protein L32, pseudogene 6 Neighboring gene U6 spliceosomal RNA Neighboring gene solute carrier family 39 member 6

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. RPRD1A and RPRD1B are human RNA polymerase II C-terminal domain scaffolds for Ser5 dephosphorylation. Ni Z, et al. Nat Struct Mol Biol, 2014 Aug. PMID 24997600, Free PMC Article
    2. Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B. Ni Z, et al. Transcription, 2011 Sep-Oct. PMID 22231121, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA polymerase II C-terminal domain binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA polymerase II promoter clearance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription preinitiation complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    regulation of nuclear pre-mRNA domain-containing protein 1A
    Names
    cyclin-dependent kinase 2B-inhibitor-related protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001305179.1 → NP_001292108.1  regulation of nuclear pre-mRNA domain-containing protein 1A

      See identical proteins and their annotated locations for NP_001292108.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      D4AAU4
      Related
      ENSRNOP00000021624.4, ENSRNOT00000021624.8
      Conserved Domains (2) summary
      cd17011
      Location:4 → 131
      CID_RPRD1A; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1A
      pfam16566
      Location:165 → 310
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086036.1 Reference GRCr8

      Range
      16066169..16114102 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_214609.9 → XP_214609.6  regulation of nuclear pre-mRNA domain-containing protein 1A isoform X1

      See identical proteins and their annotated locations for XP_214609.6

      UniProtKB/TrEMBL
      D4AAU4
      Conserved Domains (2) summary
      cd17011
      Location:4 → 131
      CID_RPRD1A; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1A
      pfam16566
      Location:165 → 310
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    2. XM_063277256.1 → XP_063133326.1  regulation of nuclear pre-mRNA domain-containing protein 1A isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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