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    Ctdsp1 CTD small phosphatase 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 363249, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Ctdsp1provided by RGD
    Official Full Name
    CTD small phosphatase 1provided by RGD
    Primary source
    RGD:1305629
    See related
    Ensembl:ENSRNOG00000015295 AllianceGenome:RGD:1305629
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in protein dephosphorylation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle; negative regulation of cell differentiation; and negative regulation of protein phosphorylation. Predicted to be located in nucleoplasm. Orthologous to human CTDSP1 (CTD small phosphatase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 328.7), Lung (RPKM 263.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ctdsp1 in Genome Data Viewer
    Location:
    9q33
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (83422755..83428411)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (75973694..75979298)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (81672613..81677979)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene ciliogenesis associated TTC17 interacting protein Neighboring gene solute carrier family 11 member 1 Neighboring gene microRNA 26b Neighboring gene villin 1 Neighboring gene ubiquitin specific peptidase 37 Neighboring gene transfer RNA proline (anticodon AGG) 59

    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. Organization of SCP1 protein molecules within synaptonemal complexes of the rat. Schmekel K, et al. Exp Cell Res, 1996 Jul 10. PMID 8660935
    2. The writers, readers, and functions of the RNA polymerase II C-terminal domain code. Jeronimo C, et al. Chem Rev, 2013 Nov 13. PMID 23837720
    3. Updating the RNA polymerase CTD code: adding gene-specific layers. Egloff S, et al. Trends Genet, 2012 Jul. PMID 22622228
    4. The microRNA miR-124 antagonizes the anti-neural REST/SCP1 pathway during embryonic CNS development. Visvanathan J, et al. Genes Dev, 2007 Apr 1. PMID 17403776, Free PMC Article
    5. MicroRNA-26a/b and their host genes cooperate to inhibit the G1/S transition by activating the pRb protein. Zhu Y, et al. Nucleic Acids Res, 2012 May. PMID 22210897, Free PMC Article

    See all (10) citations in PubMed

    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 CTD heptapeptide repeat phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat phosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables myosin phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within negative regulation of G1/S transition of mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of neurogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1
    Names
    CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1
    NP_001121551.1
    XP_006245298.1
    XP_038939804.1
    XP_063123456.1
    XP_063123457.1
    XP_063123459.1

    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_001128079.1 → NP_001121551.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1

      See identical proteins and their annotated locations for NP_001121551.1

      Status: PROVISIONAL

      Source sequence(s)
      BC161976
      UniProtKB/TrEMBL
      A0A8I6ACZ1, B1WC24, F7F6Y7
      Related
      ENSRNOP00000020646.3, ENSRNOT00000020646.7
      Conserved Domains (1) summary
      TIGR02251
      Location:90 → 249
      HIF-SF_euk; Dullard-like phosphatase domain

    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_086027.1 Reference GRCr8

      Range
      83422755..83428411
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063267389.1 → XP_063123459.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X4

    2. XM_063267386.1 → XP_063123456.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X1

    3. XM_039083876.2 → XP_038939804.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X5

      UniProtKB/TrEMBL
      A0A8I6ACZ1
      Conserved Domains (1) summary
      TIGR02251
      Location:71 → 214
      HIF-SF_euk; Dullard-like phosphatase domain

    4. XM_063267387.1 → XP_063123457.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X2

    5. XM_006245236.5 → XP_006245298.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZS34, A0A8I6ACZ1
      Related
      ENSRNOP00000081485.1
      Conserved Domains (2) summary
      COG5190
      Location:79 → 254
      FCP1; TFIIF-interacting CTD phosphatase, includes NLI-interacting factor [Transcription]
      TIGR02251
      Location:90 → 249
      HIF-SF_euk; Dullard-like phosphatase domain
    Nucleotide Protein Strain
    Heading Accession and Version

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