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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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