LOCUS       NM_021198               2525 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens CTD small phosphatase 1 (CTDSP1), transcript variant
            1, mRNA.
ACCESSION   NM_021198
VERSION     NM_021198.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2525)
  AUTHORS   Gervasi,N.M., Dimtchev,A., Clark,D.M., Dingle,M., Pisarchik,A.V.
            and Nesti,L.J.
  TITLE     C-terminal domain small phosphatase 1 (CTDSP1) regulates growth
            factor expression and axonal regeneration in peripheral nerve
            tissue
  JOURNAL   Sci Rep 11 (1), 14462 (2021)
   PUBMED   34262056
  REMARK    GeneRIF: C-terminal domain small phosphatase 1 (CTDSP1) regulates
            growth factor expression and axonal regeneration in peripheral
            nerve tissue.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2525)
  AUTHORS   Yang,X., Chen,Y., Zhou,Y., Wu,C., Li,Q., Wu,J., Hu,W.W., Zhao,W.Q.,
            Wei,W., Wu,C.P., Jiang,J.T. and Ji,M.
  TITLE     GPC5 suppresses lung cancer progression and metastasis via
            intracellular CTDSP1/AhR/ARNT signaling axis and extracellular
            exosome secretion
  JOURNAL   Oncogene 40 (25), 4307-4323 (2021)
   PUBMED   34079082
  REMARK    GeneRIF: GPC5 suppresses lung cancer progression and metastasis via
            intracellular CTDSP1/AhR/ARNT signaling axis and extracellular
            exosome secretion.
REFERENCE   3  (bases 1 to 2525)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 2525)
  AUTHORS   Qian,W., Li,Q., Wu,X., Li,W., Li,Q., Zhang,J., Li,M., Zhang,D.,
            Zhao,H., Zou,X., Jia,H., Zhang,L., Yang,X.D. and Hou,Z.
  TITLE     Deubiquitinase USP29 promotes gastric cancer cell migration by
            cooperating with phosphatase SCP1 to stabilize Snail protein
  JOURNAL   Oncogene 39 (44), 6802-6815 (2020)
   PUBMED   32973332
  REMARK    GeneRIF: Deubiquitinase USP29 promotes gastric cancer cell
            migration by cooperating with phosphatase SCP1 to stabilize Snail
            protein.
REFERENCE   5  (bases 1 to 2525)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   6  (bases 1 to 2525)
  AUTHORS   Knockaert,M., Sapkota,G., Alarcon,C., Massague,J. and
            Brivanlou,A.H.
  TITLE     Unique players in the BMP pathway: small C-terminal domain
            phosphatases dephosphorylate Smad1 to attenuate BMP signaling
  JOURNAL   Proc Natl Acad Sci U S A 103 (32), 11940-11945 (2006)
   PUBMED   16882717
REFERENCE   7  (bases 1 to 2525)
  AUTHORS   Yeo,M., Lee,S.K., Lee,B., Ruiz,E.C., Pfaff,S.L. and Gill,G.N.
  TITLE     Small CTD phosphatases function in silencing neuronal gene
            expression
  JOURNAL   Science 307 (5709), 596-600 (2005)
   PUBMED   15681389
  REMARK    GeneRIF: results show that REST/NRSF recruits SCPs to neuronal
            genes that contain RE-1 elements, leading to neuronal gene
            silencing in non-neuronal cells
REFERENCE   8  (bases 1 to 2525)
  AUTHORS   Yeo,M., Lin,P.S., Dahmus,M.E. and Gill,G.N.
  TITLE     A novel RNA polymerase II C-terminal domain phosphatase that
            preferentially dephosphorylates serine 5
  JOURNAL   J Biol Chem 278 (28), 26078-26085 (2003)
   PUBMED   12721286
  REMARK    GeneRIF: SCP1 may play a role in the regulation of gene expression,
            possibly by controlling the transition from initiation/capping to
            processive transcript elongation
REFERENCE   9  (bases 1 to 2525)
  AUTHORS   Ma,X., Wright,J., Dou,S., Olsen,P., Teeter,L., Adams,G. and
            Graviss,E.
  TITLE     Ethnic divergence and linkage disequilibrium of novel SNPs in the
            human NLI-IF gene: evidence of human origin and lack of association
            with tuberculosis susceptibility
  JOURNAL   J Hum Genet 47 (3), 140-145 (2002)
   PUBMED   11950066
  REMARK    GeneRIF: Polymorphisms vary significantly between races; Not
            associated with TB susceptibility in Caucasians.
REFERENCE   10 (bases 1 to 2525)
  AUTHORS   Marquet,S., Lepage,P., Hudson,T.J., Musser,J.M. and Schurr,E.
  TITLE     Complete nucleotide sequence and genomic structure of the human
            NRAMP1 gene region on chromosome region 2q35
  JOURNAL   Mamm Genome 11 (9), 755-762 (2000)
   PUBMED   10967134
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF229162.1 and AY279529.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_021198.2.
            
            Summary: This gene encodes a member of the small C-terminal domain
            phosphatase (SCP) family of nuclear phosphatases. These proteins
            play a role in transcriptional regulation through specific
            dephosphorylation of phosphoserine 5 within tandem heptapeptide
            repeats of the C-terminal domain of RNA polymerase II. The encoded
            protein plays a role in neuronal gene silencing in non-neuronal
            cells, and may also inhibit osteoblast differentiation.
            Alternatively spliced transcript variants encoding multiple
            isoforms have been observed for this gene. [provided by RefSeq, Oct
            2011].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF229162.1, BC012977.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000273062.7/ ENSP00000273062.2
            RefSeq Select criteria :: based on manual assertion, conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-426               AF229162.1         114-539
            427-439             AY279529.1         204-216
            440-2525            AF229162.1         553-2638
FEATURES             Location/Qualifiers
     source          1..2525
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2q35"
     gene            1..2525
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /note="CTD small phosphatase 1"
                     /db_xref="GeneID:58190"
                     /db_xref="HGNC:HGNC:21614"
                     /db_xref="MIM:605323"
     exon            1..290
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     CDS             224..1009
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /EC_number="3.1.3.16"
                     /note="isoform 1 is encoded by transcript variant 1;
                     NLI-interacting factor 3; small C-terminal domain
                     phosphatase 1; nuclear LIM interactor-interacting factor
                     3; CTD (carboxy-terminal domain, RNA polymerase II,
                     polypeptide A) small phosphatase 1"
                     /codon_start=1
                     /product="carboxy-terminal domain RNA polymerase II
                     polypeptide A small phosphatase 1 isoform 1"
                     /protein_id="NP_067021.1"
                     /db_xref="CCDS:CCDS2416.1"
                     /db_xref="GeneID:58190"
                     /db_xref="HGNC:HGNC:21614"
                     /db_xref="MIM:605323"
                     /translation="MDSSAVITQISKEEARGPLRGKGDQKSAASQKPRSRGILHSLFC
                     CVCRDDGEALPAHSGAPLLVEENGAIPKQTPVQYLLPEAKAQDSDKICVVIDLDETLV
                     HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYAD
                     PVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN
                     AVPVASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQPRPGS"
     exon            291..439
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     exon            440..544
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     exon            545..601
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     exon            602..694
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     exon            695..880
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     exon            881..2525
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2502..2507
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /note="hexamer: ACTAAA"
     polyA_site      2525
                     /gene="CTDSP1"
                     /gene_synonym="NIF3; NLI-IF; NLIIF; SCP1"
                     /note="major polyA site"
ORIGIN      
        1 gcatccgcct cgcgggaagg aaactccatg ttgtaacaaa gtttcctccg cgccccctcc
       61 ctccccctcc cccctagaac ctggctcccc tcccctccgg agctcgcggg gatccctccc
      121 tcccacccct cccctccccc ccgcgccccg attccggccc cagccggggg ggaggccggg
      181 cgcccgggcc agagtccggc cggagcggag cgcgcccggc cccatggaca gctcggccgt
      241 cattactcag atcagcaagg aggaggctcg gggcccgctg cggggcaaag gtgaccagaa
      301 gtcagcagct tcccagaagc cccgaagccg gggcatcctc cactcactct tctgctgtgt
      361 ctgccgggat gatggggagg ccctgcctgc tcacagcggg gcgcccctgc ttgtggagga
      421 gaatggcgcc atccctaagc agaccccagt ccaatacctg ctccctgagg ccaaggccca
      481 ggactcagac aagatctgcg tggtcatcga cctggacgag accctggtgc acagctcctt
      541 caagccagtg aacaacgcgg acttcatcat ccctgtggag attgatgggg tggtccacca
      601 ggtctacgtg ttgaagcgtc ctcacgtgga tgagttcctg cagcgaatgg gcgagctctt
      661 tgaatgtgtg ctgttcactg ctagcctcgc caagtacgca gacccagtag ctgacctgct
      721 ggacaaatgg ggggccttcc gggcccggct gtttcgagag tcctgcgtct tccaccgggg
      781 gaactacgtg aaggacctga gccggttggg tcgagacctg cggcgggtgc tcatcctgga
      841 caattcacct gcctcctatg tcttccatcc agacaatgct gtaccggtgg cctcgtggtt
      901 tgacaacatg agtgacacag agctccacga cctcctcccc ttcttcgagc aactcagccg
      961 tgtggacgac gtgtactcag tgctcaggca gccacggcca gggagctagt gagggtgatg
     1021 gggccaggac ctgcccctga ccaatgatac ccacacctcc tcccaggaag actgcccagg
     1081 cctttgttag gaaaacccat gggccgccgc cacactcagt gccatgggga agcgggcgtc
     1141 tcccccacca gccccaccag gcggtgtagg ggcagcaggc tgcactgagg accgtgagct
     1201 ccaggccccg tgtcagtgcc ttcaaacctc ctcccctatt ctcaggggac ctggggggcc
     1261 ctgcctgctg ctcccttttt ctgtctctgt ccatgctgcc atgtttctct gctgccaaat
     1321 tgggcccctt ggccccttcc ggttctgctt cctgggggca gggttcctgc cttggacccc
     1381 cagtctggga acggtggaca tcaagtgcct tgcatagagc cccctcttcc ccgcccagct
     1441 ttcccagggg cacagctcta ggctgggagg ggagaaccag cccctccccc tgccccacct
     1501 cctcccttgg gactgagagg gcccctacca acctttgcct ctgccttgga gggaggggag
     1561 gtctgttacc actggggaag gcagcaggag tctgtccttc aggccccaca gtgcagcttc
     1621 tccagggccg acagctgagg gctgctccct gcatcatcca agcaatgacc tcagacttct
     1681 gccttaacca gccccggggc ttggctcccc cagctctgag cgtgggggca taggcaggac
     1741 cccccttgtg gtgccatata aatatgtaca tgtgtatata gatttttagg ggaaggagag
     1801 agggaagggt cagggtagag acacccctcc cttgcccctt tcctgggccc agaagttggg
     1861 gggagggagg gaaaggattt ttacattttt taaactgcta ttttctgaat ggaacaagct
     1921 gggccaaggg gcccaggccc tgtcctctgt ccctcacacc cctttgctcc gttcattcat
     1981 tcaaaaaaac atttcttgag caccttctgt gcccagcata tgctaggccc accagctaag
     2041 tgtgtgtggg gggtctctac gccagctcat cagtgcctcc ttgcccatcc ttcaccggtg
     2101 cctttggggg atctgtagga ggtgggacct tctgtggggt ttggggatct ccaggaagcc
     2161 cgaccaagct gtccccttcc cctgtgccaa cccatctcct acagccccct gcctgatccc
     2221 ctgctggctg ggggcagctc ccaggatatc ctgccttcca actgtttctg aagcccctcc
     2281 tcctaacatg gcgattccgg aggtcaaggc cttgggctct ccccagggtc taacggttaa
     2341 ggggacccac ataccagtgc caagggggat gtcaagtggt gatgtcgttg tgctcccctc
     2401 ccccagagcg ggtgggcggg gggtgaatat ggttggcctg catcaggtgg ccttcccatt
     2461 taagtgcctt ctctgtgact gagagcccta gtgtgatgag aactaaagag aaagccagac
     2521 cccta
//
