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

Gene ID: 225283, updated on 5-Mar-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 dephosphorylation of RNA polymerase II C-terminal domain and mRNA 3'-end processing. Predicted to be part of RNA polymerase II, holoenzyme. 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, Apr 2022]
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 (21) 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 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
  
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 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

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