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

Gene ID: 311591, updated on 30-Mar-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
Ensembl: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 mRNA 3'-end processing; positive regulation of cell population proliferation; and regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of RNA polymerase II, holoenzyme. Orthologous to human RPRD1B (regulation of nuclear pre-mRNA domain containing 1B). [provided by Alliance of Genome Resources, Apr 2022]
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, ENSRNOT00000017265.7
    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
    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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