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    CTDSP2 CTD small phosphatase 2 [ Homo sapiens (human) ]

    Gene ID: 10106, updated on 27-Nov-2024

    Summary

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    Official Symbol
    CTDSP2provided by HGNC
    Official Full Name
    CTD small phosphatase 2provided by HGNC
    Primary source
    HGNC:HGNC:17077
    See related
    Ensembl:ENSG00000175215 MIM:608711; AllianceGenome:HGNC:17077
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    OS4; PSR2; SCP2
    Summary
    Enables RNA polymerase II CTD heptapeptide repeat phosphatase activity. Involved in protein dephosphorylation. Predicted to be located in nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in lung (RPKM 63.4), ovary (RPKM 53.0) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CTDSP2 in Genome Data Viewer
    Location:
    12q14.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (57819927..57846729, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (57788296..57815097, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (58213710..58240512, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:58176331-58177200 Neighboring gene Ts translation elongation factor, mitochondrial Neighboring gene RNA, U6 small nuclear 1083, pseudogene Neighboring gene advillin Neighboring gene microRNA 26a-2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6560 Neighboring gene uncharacterized LOC105369783 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6561 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:58231763-58232383 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4594 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4595 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4596 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4597 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4598 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4599 Neighboring gene uncharacterized LOC124902948 Neighboring gene uncharacterized LOC283387 Neighboring gene Sharpr-MPRA regulatory region 12928 Neighboring gene Sharpr-MPRA regulatory region 14680 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:58286906-58287406 Neighboring gene uncharacterized LOC101927608

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Characterization of a highly conserved gene (OS4) amplified with CDK4 in human sarcomas. Su YA, et al. Oncogene, 1997 Sep. PMID 9315096
    2. Direct isolation of genes encoded within a homogeneously staining region by chromosome microdissection. Su YA, et al. Proc Natl Acad Sci U S A, 1994 Sep 13. PMID 8090779, Free PMC Article
    3. Small carboxyl-terminal domain phosphatase 2 attenuates androgen-dependent transcription. Thompson J, et al. EMBO J, 2006 Jun 21. PMID 16724108, Free PMC Article
    4. A strategy for cloning the hereditary hemochromatosis gene. Beutler E, et al. Blood Cells Mol Dis, 1995. PMID 8673473
    5. Tumor suppressor properties of the small C-terminal domain phosphatases in non-small cell lung cancer. Krasnov GS, et al. Biosci Rep, 2019 Dec 20. PMID 31774910, Free PMC Article

    See all (33) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Tumor suppressor properties of the small C-terminal domain phosphatases in non-small cell lung cancer.
      Title: Tumor suppressor properties of the small C-terminal domain phosphatases in non-small cell lung cancer.
    2. CTDSP2 induces p21(Cip1/Waf1) through increasing the activity of Ras.
      Title: FOXO target gene CTDSP2 regulates cell cycle progression through Ras and p21(Cip1/Waf1).
    3. SCP2 acts as a phosphatase for regulatory phosphorylations in the linker region of Smad1 and Smad2
      Title: Dephosphorylation of the linker regions of Smad1 and Smad2/3 by small C-terminal domain phosphatases has distinct outcomes for bone morphogenetic protein and transforming growth factor-beta pathways.
    4. These results suggest that SCP2 is involved in promoter clearance during steroid-activated transcription.
      Title: Small carboxyl-terminal domain phosphatase 2 attenuates androgen-dependent transcription.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    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 GOA

    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables myosin phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of G1/S transition of mitotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein dephosphorylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 2
    Names
    CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2
    NLI-interacting factor 2
    conserved gene amplified in osteosarcoma
    nuclear LIM interactor-interacting factor 2
    protein OS-4
    small C-terminal domain phosphatase 2
    small CTD phosphatase 2
    NP_005721.3
    XP_005268613.1
    XP_054226696.1

    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_005730.4 → NP_005721.3  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 2

      See identical proteins and their annotated locations for NP_005721.3

      Status: VALIDATED

      Source sequence(s)
      AC121759, BC018922, CN313995
      Consensus CDS
      CCDS41801.1
      UniProtKB/Swiss-Prot
      A8K5H4, O14595, Q53ZR2, Q6NZY3, Q9UEX1
      Related
      ENSP00000381148.2, ENST00000398073.7
      Conserved Domains (1) summary
      TIGR02251
      Location:101 → 260
      HIF-SF_euk; Dullard-like phosphatase domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      57819927..57846729 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005268556.3 → XP_005268613.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 2 isoform X1

      See identical proteins and their annotated locations for XP_005268613.1

      Conserved Domains (1) summary
      TIGR02251
      Location:107 → 266
      HIF-SF_euk; Dullard-like phosphatase domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      57788296..57815097 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054370721.1 → XP_054226696.1  carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 2 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O14595.2 GenPept UniProtKB/Swiss-Prot:O14595

    Gene LinkOut

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