LOCUS       NM_004071               1847 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens CDC like kinase 1 (CLK1), transcript variant 1, mRNA.
ACCESSION   NM_004071
VERSION     NM_004071.4
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 1847)
  AUTHORS   Hogg,E.K.J. and Findlay,G.M.
  TITLE     Functions of SRPK, CLK and DYRK kinases in stem cells, development,
            and human developmental disorders
  JOURNAL   FEBS Lett 597 (19), 2375-2415 (2023)
   PUBMED   37607329
  REMARK    GeneRIF: Functions of SRPK, CLK and DYRK kinases in stem cells,
            development, and human developmental disorders.
            Review article
REFERENCE   2  (bases 1 to 1847)
  AUTHORS   Aubol,B.E., Wozniak,J.M., Fattet,L., Gonzalez,D.J. and Adams,J.A.
  TITLE     CLK1 reorganizes the splicing factor U1-70K for early spliceosomal
            protein assembly
  JOURNAL   Proc Natl Acad Sci U S A 118 (14) (2021)
   PUBMED   33811140
  REMARK    GeneRIF: CLK1 reorganizes the splicing factor U1-70K for early
            spliceosomal protein assembly.
REFERENCE   3  (bases 1 to 1847)
  AUTHORS   Aubol,B.E., Fattet,L. and Adams,J.A.
  TITLE     A conserved sequence motif bridges two protein kinases for enhanced
            phosphorylation and nuclear function of a splicing factor
  JOURNAL   FEBS J 288 (2), 566-581 (2021)
   PUBMED   32359191
  REMARK    GeneRIF: A conserved sequence motif bridges two protein kinases for
            enhanced phosphorylation and nuclear function of a splicing factor.
REFERENCE   4  (bases 1 to 1847)
  AUTHORS   Babu,N., Pinto,S.M., Biswas,M., Subbannayya,T., Rajappa,M.,
            Mohan,S.V., Advani,J., Rajagopalan,P., Sathe,G., Syed,N.,
            Radhakrishna,V.D., Muthusamy,O., Navani,S., Kumar,R.V.,
            Gopisetty,G., Rajkumar,T., Radhakrishnan,P., Thiyagarajan,S.,
            Pandey,A., Gowda,H., Majumder,P. and Chatterjee,A.
  TITLE     Phosphoproteomic analysis identifies CLK1 as a novel therapeutic
            target in gastric cancer
  JOURNAL   Gastric Cancer 23 (5), 796-810 (2020)
   PUBMED   32333232
  REMARK    GeneRIF: Phosphoproteomic analysis identifies CLK1 as a novel
            therapeutic target in gastric cancer.
REFERENCE   5  (bases 1 to 1847)
  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 1847)
  AUTHORS   Talmadge,C.B., Finkernagel,S., Sumegi,J., Sciorra,L. and Rabinow,L.
  TITLE     Chromosomal mapping of three human LAMMER protein-kinase-encoding
            genes
  JOURNAL   Hum Genet 103 (4), 523-524 (1998)
   PUBMED   9856501
REFERENCE   7  (bases 1 to 1847)
  AUTHORS   Colwill,K., Feng,L.L., Yeakley,J.M., Gish,G.D., Caceres,J.F.,
            Pawson,T. and Fu,X.D.
  TITLE     SRPK1 and Clk/Sty protein kinases show distinct substrate
            specificities for serine/arginine-rich splicing factors
  JOURNAL   J Biol Chem 271 (40), 24569-24575 (1996)
   PUBMED   8798720
REFERENCE   8  (bases 1 to 1847)
  AUTHORS   Colwill,K., Pawson,T., Andrews,B., Prasad,J., Manley,J.L.,
            Bell,J.C. and Duncan,P.I.
  TITLE     The Clk/Sty protein kinase phosphorylates SR splicing factors and
            regulates their intranuclear distribution
  JOURNAL   EMBO J 15 (2), 265-275 (1996)
   PUBMED   8617202
REFERENCE   9  (bases 1 to 1847)
  AUTHORS   Hanes,J., von der Kammer,H., Klaudiny,J. and Scheit,K.H.
  TITLE     Characterization by cDNA cloning of two new human protein kinases.
            Evidence by sequence comparison of a new family of mammalian
            protein kinases
  JOURNAL   J Mol Biol 244 (5), 665-672 (1994)
   PUBMED   7990150
REFERENCE   10 (bases 1 to 1847)
  AUTHORS   Johnson,K.W. and Smith,K.A.
  TITLE     Molecular cloning of a novel human cdc2/CDC28-like protein kinase
  JOURNAL   J Biol Chem 266 (6), 3402-3407 (1991)
   PUBMED   1704889
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA225472.1, BC031549.1 and
            AI251890.1.
            
            On Nov 25, 2018 this sequence version replaced NM_004071.3.
            
            Summary: This gene encodes a member of the CDC2-like (or LAMMER)
            family of dual specificity protein kinases. In the nucleus, the
            encoded protein phosphorylates serine/arginine-rich proteins
            involved in pre-mRNA processing, releasing them into the
            nucleoplasm. The choice of splice sites during pre-mRNA processing
            may be regulated by the concentration of transacting factors,
            including serine/arginine rich proteins. Therefore, the encoded
            protein may play an indirect role in governing splice site
            selection. Multiple transcript variants encoding different isoforms
            have been found for this gene. [provided by RefSeq, Jun 2009].
            
            Transcript Variant: This variant (1) encodes the shorter 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 :: SRR1660805.206101.1,
                                           SRR1803616.166555.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000321356.9/ ENSP00000326830.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-18                DA225472.1         87-104
            19-1691             BC031549.1         1-1673
            1692-1847           AI251890.1         2-157               c
FEATURES             Location/Qualifiers
     source          1..1847
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2q33.1"
     gene            1..1847
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /note="CDC like kinase 1"
                     /db_xref="GeneID:1195"
                     /db_xref="HGNC:HGNC:2068"
                     /db_xref="MIM:601951"
     exon            1..95
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     CDS             96..1550
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /EC_number="2.7.12.1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     CDC28/CDC2-like kinase; dual specificity protein kinase
                     CLK1; protein tyrosine kinase STY"
                     /codon_start=1
                     /product="dual specificity protein kinase CLK1 isoform 1"
                     /protein_id="NP_004062.2"
                     /db_xref="CCDS:CCDS2331.1"
                     /db_xref="GeneID:1195"
                     /db_xref="HGNC:HGNC:2068"
                     /db_xref="MIM:601951"
                     /translation="MRHSKRTYCPDWDDKDWDYGKWRSSSSHKRRKRSHSSAQENKRC
                     KYNHSKMCDSHYLESRSINEKDYHSRRYIDEYRNDYTQGCEPGHRQRDHESRYQNHSS
                     KSSGRSGRSSYKSKHRIHHSTSHRRSHGKSHRRKRTRSVEDDEEGHLICQSGDVLSAR
                     YEIVDTLGEGAFGKVVECIDHKAGGRHVAVKIVKNVDRYCEAARSEIQVLEHLNTTDP
                     NSTFRCVQMLEWFEHHGHICIVFELLGLSTYDFIKENGFLPFRLDHIRKMAYQICKSV
                     NFLHSNKLTHTDLKPENILFVQSDYTEAYNPKIKRDERTLINPDIKVVDFGSATYDDE
                     HHSTLVSTRHYRAPEVILALGWSQPCDVWSIGCILIEYYLGFTVFPTHDSKEHLAMME
                     RILGPLPKHMIQKTRKRKYFHHDRLDWDEHSSAGRYVSRRCKPLKEFMLSQDVEHERL
                     FDLIQKMLEYDPAKRITLREALKHPFFDLLKKSI"
     exon            96..256
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            257..485
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            486..576
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            577..643
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            644..760
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            761..927
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            928..1022
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1023..1152
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1153..1235
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1236..1315
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1316..1406
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1407..1847
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1753..1758
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /note="hexamer: AATAAA"
     polyA_site      1775
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /note="major polyA site"
     regulatory      1829..1834
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
                     /note="hexamer: ATTAAA"
     polyA_site      1847
                     /gene="CLK1"
                     /gene_synonym="CLK; CLK/STY; STY"
ORIGIN      
        1 attttgttgt tggtgcgcga cgcagtcagc tgcgtgattc ccgtgattgc gttacaagct
       61 ttgtctcctt cgacttggag tctttgtcca ggacgatgag acactcaaag agaacttact
      121 gtcctgattg ggatgacaag gattgggatt atggaaaatg gaggagcagc agcagtcata
      181 aaagaaggaa gagatcacat agcagtgccc aggagaacaa gcgctgcaaa tacaatcact
      241 ctaaaatgtg tgatagccat tatttggaaa gcaggtctat aaatgagaaa gattatcata
      301 gtcgacgcta cattgatgag tacagaaatg actacactca aggatgtgaa cctggacatc
      361 gccaaagaga ccatgaaagc cggtatcaga accatagtag caagtcttct ggtagaagtg
      421 gaagaagtag ttataaaagc aaacacagga ttcaccacag tacttcacat cgtcgttcac
      481 atgggaagag tcaccgaagg aaaagaacca ggagtgtaga ggatgatgag gagggtcacc
      541 tgatctgtca gagtggagac gtactaagtg caagatatga aattgttgat actttaggtg
      601 aaggagcttt tggaaaagtt gtggagtgca tcgatcataa agcgggaggt agacatgtag
      661 cagtaaaaat agttaaaaat gtggatagat actgtgaagc tgctcgctca gaaatacaag
      721 ttctggaaca tctgaataca acagacccca acagtacttt ccgctgtgtc cagatgttgg
      781 aatggtttga gcatcatggt cacatttgca ttgtttttga actattggga cttagtactt
      841 acgacttcat taaagaaaat ggttttctac catttcgact ggatcatatc agaaagatgg
      901 catatcagat atgcaagtct gtgaattttt tgcacagtaa taagttgact cacacagact
      961 taaagcctga aaacatctta tttgtgcagt ctgactacac agaggcgtat aatcccaaaa
     1021 taaaacgtga tgaacgcacc ttaataaatc cagatattaa agttgtagac tttggtagtg
     1081 caacatatga tgacgaacat cacagtacat tggtatctac aagacattat agagcacctg
     1141 aagttatttt agccctaggg tggtcccaac catgtgatgt ctggagcata ggatgcattc
     1201 ttattgaata ctatcttggg tttaccgtat ttccaacaca cgatagtaag gagcatttag
     1261 caatgatgga aaggattctt ggacctctac caaaacatat gatacagaaa accaggaaac
     1321 gtaaatattt tcaccacgat cgattagact gggatgaaca cagttctgcc ggcagatatg
     1381 tttcaagacg ctgtaaacct ctgaaggaat ttatgctttc tcaagatgtt gaacatgagc
     1441 gtctctttga cctcattcag aaaatgttgg agtatgatcc agccaaaaga attactctca
     1501 gagaagcctt aaagcatcct ttctttgacc ttctgaagaa aagtatatag atctgtaatt
     1561 ggacagctct ctcgaagaga tcttacagac tgtatcagtc taatttttaa attttaagtt
     1621 attttgtaca gctttgtaaa ttcttaacat ttttatattg ccatgtttat tttgtttggg
     1681 taatttggtt cattaagtac atagctaagg taatgaacat ctttttcagt aattgtaaag
     1741 tgatttattc agaataaatt ttttgtgctt atgaagttga tatgtatctg aacagtttgt
     1801 tctaagtacc atttttcttc ctacttctat taaagaatgg acataga
//
