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    Rprd1b regulation of nuclear pre-mRNA domain containing 1B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311591, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rprd1bprovided by RGD
    Official Full Name
    regulation of nuclear pre-mRNA domain containing 1Bprovided by RGD
    Primary source
    RGD:1304782
    See related
    EnsemblRapid:ENSRNOG00000012923 AllianceGenome:RGD:1304782
    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
    Crept; RGD1304782
    Summary
    Predicted to enable RNA polymerase II complex binding activity and identical protein binding activity. Predicted to be involved in several processes, including RNA metabolic process; positive regulation of cell population proliferation; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of transcription preinitiation complex. Orthologous to human RPRD1B (regulation of nuclear pre-mRNA domain containing 1B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 73.0), Heart (RPKM 70.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rprd1b in Genome Data Viewer
    Location:
    3q42
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (167102909..167149184)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (146682975..146729251)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (154507029..154553312)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene large ribosomal subunit protein eL8-like Neighboring gene TELO2 interacting protein 1 Neighboring gene uncharacterized LOC108350509 Neighboring gene transglutaminase 2

    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. CREPT accelerates tumorigenesis by regulating the transcription of cell-cycle-related genes. Lu D, et al. Cancer Cell, 2012 Jan 17. PMID 22264791
    3. 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
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    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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    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 RNA polymerase II complex binding ISO
    Inferred from Sequence Orthology
    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 mRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 1B
    Names
    cell-cycle related and expression-elevated protein in tumor

    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_001098727.1 → NP_001092197.1  regulation of nuclear pre-mRNA domain-containing protein 1B

      See identical proteins and their annotated locations for NP_001092197.1

      Status: VALIDATED

      Source sequence(s)
      CK365545, DY310142, DY565371, JAXUCZ010000003
      UniProtKB/TrEMBL
      B5DEK0
      Related
      ENSRNOP00000017265.4, ENSRNOT00000017265.8
      Conserved Domains (2) summary
      cd17012
      Location:3 → 131
      CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B
      pfam16566
      Location:178 → 324
      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_086021.1 Reference GRCr8

      Range
      167102909..167149184
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105089.2 → XP_038961017.1  regulation of nuclear pre-mRNA domain-containing protein 1B isoform X2

      UniProtKB/TrEMBL
      A0A8I6AFR9
      Related
      ENSRNOP00000091603.1, ENSRNOT00000109927.2
      Conserved Domains (2) summary
      cd17012
      Location:3 → 131
      CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B
      pfam16566
      Location:178 → 218
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    2. XM_006235412.3 → XP_006235474.1  regulation of nuclear pre-mRNA domain-containing protein 1B isoform X1

      See identical proteins and their annotated locations for XP_006235474.1

      UniProtKB/TrEMBL
      A6JWU8
      Conserved Domains (2) summary
      cd17012
      Location:3 → 131
      CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B
      pfam16566
      Location:177 → 323
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    3. XM_039105091.2 → XP_038961019.1  regulation of nuclear pre-mRNA domain-containing protein 1B isoform X3

      Conserved Domains (1) summary
      pfam16566
      Location:50 → 196
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    4. XM_039105092.2 → XP_038961020.1  regulation of nuclear pre-mRNA domain-containing protein 1B isoform X4

      Conserved Domains (1) summary
      pfam16566
      Location:45 → 191
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor
    Nucleotide Protein Strain
    Heading Accession and Version

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