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    Rprd1a regulation of nuclear pre-mRNA domain containing 1A [ Mus musculus (house mouse) ]

    Gene ID: 225283, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rprd1aprovided by MGI
    Official Full Name
    regulation of nuclear pre-mRNA domain containing 1Aprovided by MGI
    Primary source
    MGI:MGI:2385066
    See related
    Ensembl:ENSMUSG00000040446 AllianceGenome:MGI:2385066
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    mKIAA4077
    Summary
    Predicted to enable RNA polymerase II complex binding activity and identical protein binding activity. Predicted to be involved in RNA polymerase II promoter clearance and mRNA 3'-end processing. Predicted to be located in nucleus. Predicted to be part of transcription preinitiation complex. Is expressed in dorsal root ganglion; renal calyx; and submandibular gland primordium. Orthologous to human RPRD1A (regulation of nuclear pre-mRNA domain containing 1A). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in frontal lobe adult (RPKM 6.1), cortex adult (RPKM 5.6) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rprd1a in Genome Data Viewer
    Location:
    18 A2; 18 13.18 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (24618017..24663306, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (24484960..24530235, complement)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32547 Neighboring gene RIKEN cDNA 2700062C07 gene Neighboring gene predicted gene, 32436 Neighboring gene predicted gene, 54038 Neighboring gene STARR-positive B cell enhancer ABC_E9972 Neighboring gene STARR-seq mESC enhancer starr_44068 Neighboring gene STARR-seq mESC enhancer starr_44069 Neighboring gene STARR-seq mESC enhancer starr_44070 Neighboring gene STARR-seq mESC enhancer starr_44071 Neighboring gene solute carrier family 39 (metal ion transporter), member 6 Neighboring gene STARR-positive B cell enhancer ABC_E8706 Neighboring gene elongator acetyltransferase complex subunit 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. An approximately 1.2-Mb bacterial artificial chromosome contig refines the genetic and physical maps of the lurcher locus on mouse chromosome 6. De Jager PL, et al. Genome Res, 1997 Jul. PMID 9253602, Free PMC Article
    2. A STUB1 ubiquitin ligase/CHIC2 protein complex negatively regulates the IL-3, IL-5, and GM-CSF cytokine receptor common β chain (CSF2RB) protein stability. Koochaki SHJ, et al. J Biol Chem, 2022 Oct. PMID 36108743, Free PMC Article
    3. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    4. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
    5. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA4077, MGC29396, MGC36325

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II C-terminal domain binding 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 RNA polymerase II promoter clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of transcription preinitiation complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription preinitiation complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    regulation of nuclear pre-mRNA domain-containing protein 1A
    Names
    cyclin-dependent kinase inhibitor 2B-related protein
    p15INK4B-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_001360807.1 → NP_001347736.1  regulation of nuclear pre-mRNA domain-containing protein 1A

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC125096, AC131713
      Consensus CDS
      CCDS29102.1
      UniProtKB/Swiss-Prot
      Q5DTP5, Q8VDS4
      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 → 309
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    2. NM_144861.2 → NP_659110.1  regulation of nuclear pre-mRNA domain-containing protein 1A

      See identical proteins and their annotated locations for NP_659110.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK220475
      Consensus CDS
      CCDS29102.1
      UniProtKB/Swiss-Prot
      Q5DTP5, Q8VDS4
      Related
      ENSMUSP00000043618.4, ENSMUST00000046206.5
      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 → 309
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000084.7 Reference GRCm39 C57BL/6J

      Range
      24618017..24663306 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006525825.5 → XP_006525888.1  regulation of nuclear pre-mRNA domain-containing protein 1A isoform X1

      See identical proteins and their annotated locations for XP_006525888.1

      UniProtKB/Swiss-Prot
      Q5DTP5, Q8VDS4
      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 → 309
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor

    2. XM_011246895.4 → XP_011245197.1  regulation of nuclear pre-mRNA domain-containing protein 1A isoform X2

      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 → 263
      CREPT; Cell-cycle alteration and expression-elevated protein in tumor
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VDS4.1 GenPept UniProtKB/Swiss-Prot:Q8VDS4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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