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    Ssu72 SSU72 homolog, RNA polymerase II CTD phosphatase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 298681, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ssu72provided by RGD
    Official Full Name
    SSU72 homolog, RNA polymerase II CTD phosphataseprovided by RGD
    Primary source
    RGD:1307854
    See related
    AllianceGenome:RGD:1307854
    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
    Also known as
    RGD1307854
    Summary
    Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway and termination of RNA polymerase II transcription. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human SSU72 (SSU72 homolog, RNA polymerase II CTD phosphatase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 426.6), Brain (RPKM 380.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ssu72 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (171595919..171625675)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (166312267..166343432)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (173152964..173182720)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene transfer RNA serine (anticodon AGA) 54 Neighboring gene fibronectin type III domain containing 10 Neighboring gene U6 spliceosomal RNA Neighboring gene transmembrane protein 240 Neighboring gene ATPase family, AAA domain containing 3A Neighboring gene ATPase family, AAA domain containing 3A, opposite strand

    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. Crystal structure of the human symplekin-Ssu72-CTD phosphopeptide complex. Xiang K, et al. Nature, 2010 Oct 7. PMID 20861839, Free PMC Article
    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. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC116291

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables MAP kinase serine/threonine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat S2 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat S7 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat T4 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat Y1 phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 RNA polymerase II CTD heptapeptide repeat phosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables calmodulin-dependent protein phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2AXS140 phosphatase activity IEA
    Inferred from Electronic Annotation
    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
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in termination of RNA polymerase II transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of mRNA cleavage and polyadenylation specificity factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA polymerase II subunit A C-terminal domain phosphatase SSU72
    Names
    CTD phosphatase SSU72
    NP_001020828.1
    XP_063143567.1

    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_001025657.1 → NP_001020828.1  RNA polymerase II subunit A C-terminal domain phosphatase SSU72

      See identical proteins and their annotated locations for NP_001020828.1

      Status: PROVISIONAL

      Source sequence(s)
      BC099142
      UniProtKB/Swiss-Prot
      Q4KLK9
      UniProtKB/TrEMBL
      A6IUR6
      Conserved Domains (1) summary
      pfam04722
      Location:6 → 194
      Ssu72; Ssu72-like protein

    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_086023.1 Reference GRCr8

      Range
      171595919..171625675
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287497.1 → XP_063143567.1  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4KLK9.1 GenPept UniProtKB/Swiss-Prot:Q4KLK9

    Gene LinkOut

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

    Chemical Information
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