LOCUS       NM_001042634            1830 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus CDC-like kinase 1 (Clk1), transcript variant 1, mRNA.
ACCESSION   NM_001042634
VERSION     NM_001042634.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1830)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 1830)
  AUTHORS   Wang,F., Tan,P., Zhang,P., Ren,Y., Zhou,J., Li,Y., Hou,S., Li,S.,
            Zhang,L., Ma,Y., Wang,C., Tang,W., Wang,X., Huo,Y., Hu,Y., Cui,T.,
            Niu,C., Wang,D., Liu,B., Lan,Y. and Yu,J.
  TITLE     Single-cell architecture and functional requirement of alternative
            splicing during hematopoietic stem cell formation
  JOURNAL   Sci Adv 8 (1), eabg5369 (2022)
   PUBMED   34995116
REFERENCE   3  (bases 1 to 1830)
  AUTHORS   Jin,L., Chen,Y., Crossman,D.K., Datta,A., Vu,T., Mobley,J.A.,
            Basu,M.K., Scarduzio,M., Wang,H., Chang,C. and Datta,P.K.
  TITLE     STRAP regulates alternative splicing fidelity during lineage
            commitment of mouse embryonic stem cells
  JOURNAL   Nat Commun 11 (1), 5941 (2020)
   PUBMED   33230114
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1830)
  AUTHORS   Artarini,A., Meyer,M., Shin,Y.J., Huber,K., Hilz,N., Bracher,F.,
            Eros,D., Orfi,L., Keri,G., Goedert,S., Neuenschwander,M., von
            Kries,J., Domovich-Eisenberg,Y., Dekel,N., Szabadkai,I.,
            Lebendiker,M., Horvath,Z., Danieli,T., Livnah,O., Moncorge,O.,
            Frise,R., Barclay,W., Meyer,T.F. and Karlas,A.
  TITLE     Regulation of influenza A virus mRNA splicing by CLK1
  JOURNAL   Antiviral Res 168, 187-196 (2019)
   PUBMED   31176694
  REMARK    GeneRIF: Cdc-like kinase 1 (CLK1) knockdown reduces influenza A
            replication and increased the level of splicing of segment 7, which
            encodes the viral M1 and M2 proteins. CLK1-/- mice infected with
            influenza A virus supports lower levels of virus replication than
            wild-type mice.
REFERENCE   5  (bases 1 to 1830)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1830)
  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   7  (bases 1 to 1830)
  AUTHORS   Duncan,P.I., Howell,B.W., Marius,R.M., Drmanic,S., Douville,E.M.
            and Bell,J.C.
  TITLE     Alternative splicing of STY, a nuclear dual specificity kinase
  JOURNAL   J Biol Chem 270 (37), 21524-21531 (1995)
   PUBMED   7665564
REFERENCE   8  (bases 1 to 1830)
  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   9  (bases 1 to 1830)
  AUTHORS   Ben-David,Y., Letwin,K., Tannock,L., Bernstein,A. and Pawson,T.
  TITLE     A mammalian protein kinase with potential for serine/threonine and
            tyrosine phosphorylation is related to cell cycle regulators
  JOURNAL   EMBO J 10 (2), 317-325 (1991)
   PUBMED   1825055
REFERENCE   10 (bases 1 to 1830)
  AUTHORS   Howell,B.W., Afar,D.E., Lew,J., Douville,E.M., Icely,P.L.,
            Gray,D.A. and Bell,J.C.
  TITLE     STY, a tyrosine-phosphorylating enzyme with sequence homology to
            serine/threonine kinases
  JOURNAL   Mol Cell Biol 11 (1), 568-572 (1991)
   PUBMED   1986248
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC121091.10 and AK135765.1.
            
            On Jun 23, 2009 this sequence version replaced NM_001042634.1.
            
            Transcript Variant: This variant (1) encodes the functional
            protein.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: M38381.1, AK135765.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164133, SAMN01164134
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-66                AC121091.10        104407-104472       c
            67-1748             AK135765.1         2-1683
            1749-1830           AC121091.10        92372-92453         c
FEATURES             Location/Qualifiers
     source          1..1830
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 29.09 cM"
     gene            1..1830
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /note="CDC-like kinase 1"
                     /db_xref="GeneID:12747"
                     /db_xref="MGI:MGI:107403"
     exon            1..169
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     CDS             170..1621
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /EC_number="2.7.12.1"
                     /note="protein kinase STY"
                     /codon_start=1
                     /product="dual specificity protein kinase CLK1"
                     /protein_id="NP_001036099.1"
                     /db_xref="CCDS:CCDS35577.1"
                     /db_xref="GeneID:12747"
                     /db_xref="MGI:MGI:107403"
                     /translation="MRHSKRTYCPDWDERDWDYGTWRSSSSHKRKKRSHSSAREQKRC
                     RYDHSKTTDSYYLESRSINEKAYHSRRYVDEYRNDYMGYEPGHPYGEPGSRYQMHSSK
                     SSGRSGRSSYKSKHRSRHHTSQHHSHGKSHRRKRSRSVEDDEEGHLICQSGDVLSARY
                     EIVDTLGEGAFGKVVECIDHKVGGRRVAVKIVKNVDRYCEAAQSEIQVLEHLNTTDPH
                     STFRCVQMLEWFEHRGHICIVFELLGLSTYDFIKENSFLPFRMDHIRKMAYQICKSVN
                     FLHSNKLTHTDLKPENILFVKSDYTEAYNPKMKRDERTIVNPDIKVVDFGSATYDDEH
                     HSTLVSTRHYRAPEVILALGWSQPCDVWSIGCILIEYYLGFTVFPTHDSREHLAMMER
                     ILGPLPKHMIQKTRKRRYFHHDRLDWDEHSSAGRYVSRRCKPLKEFMLSQDAEHELLF
                     DLIGKMLEYDPAKRITLKEALKHPFFYPLKKHT"
     exon            170..330
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            331..556
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            557..647
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            648..714
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            715..831
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            832..998
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            999..1093
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1094..1223
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1224..1306
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1307..1386
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1387..1477
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     exon            1478..1830
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1794..1799
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /note="hexamer: AATAAA"
     polyA_site      1818
                     /gene="Clk1"
                     /gene_synonym="STY"
                     /note="major polyA site"
ORIGIN      
        1 ggtataggcc ccgcccatct acgtcaccag tttttccgag aagaagctcg cactgcgtct
       61 gtccgcacca ttttgtgttg ggagatcgtc gtaatcgttt gcagacttct cgccgtcgcc
      121 ttgtaagctt tgtcttcgcc ttgcaagctt tgtcttcagg gttggaaaga tgagacattc
      181 aaagagaact tactgtcctg actgggatga aagagactgg gattatggaa catggagaag
      241 cagcagcagt cacaaaagaa agaagagatc acatagcagc gcccgtgagc aaaagcgctg
      301 caggtacgat cactccaaaa cgacagacag ctattatctg gaaagcagat ccataaatga
      361 gaaagcttat catagtcgac gctatgttga tgaatacagg aatgactaca tgggctacga
      421 gccagggcat ccctatggag aacctggaag cagataccag atgcatagta gcaagtcctc
      481 tggtaggagt ggaagaagca gttacaaaag taaacacagg agtcgccacc acacttcgca
      541 gcaccattca cacgggaaga gtcaccgaag gaaaagatcg aggagtgtag aggatgatga
      601 ggagggtcac ctgatctgtc agagtggaga cgtactaagt gcaagatatg aaattgttga
      661 tactttaggt gaaggtgctt tcggaaaagt ggtggaatgc atcgatcata aagtgggagg
      721 tagacgtgta gcagtaaaaa tagttaaaaa tgtggataga tactgtgaag ctgctcaatc
      781 ggaaatacaa gttttggaac acttgaatac aacagacccc catagtactt tccgttgtgt
      841 ccagatgttg gagtggtttg agcatcgagg tcacatttgc attgtgtttg aacttctggg
      901 gcttagtact tatgatttca ttaaggaaaa cagttttctg ccgtttcgaa tggatcatat
      961 caggaagatg gcatatcaaa tatgcaaatc tgtaaacttt ttgcatagta ataaattgac
     1021 tcatacagac ttgaagcctg aaaacatctt atttgtgaag tctgactaca cagaggctta
     1081 taatcccaaa atgaaacgtg atgaacgtac tatagtaaat ccagatatta aagtggtgga
     1141 ctttggaagt gcaacatatg atgatgaaca ccacagcaca ttggtatcta caagacatta
     1201 tagagcaccg gaagttattt tagccctcgg gtggtcacag ccatgtgatg tctggagcat
     1261 aggatgtatt cttatcgagt attatcttgg atttacagtt tttccgactc atgatagcag
     1321 ggaacattta gcaatgatgg aaaggattct tggaccacta ccaaagcaca tgatacagaa
     1381 aaccaggaaa cgcagatatt tccatcatga tcgattagat tgggatgaac acagttctgc
     1441 tggcagatat gtttctcggc gctgtaaacc tctgaaggag tttatgctat ctcaggatgc
     1501 cgaacatgag cttctctttg acctcattgg gaaaatgttg gagtatgatc ccgccaaaag
     1561 aattactctc aaagaagccc taaagcatcc tttcttttac ccacttaaaa agcatacgtg
     1621 atttataaac acagtgctct gaaaggaatc ttacagactg tatcagtcta gcttttaatt
     1681 aagttatttt gtatagctta atttgtaaaa cattttatgt tttttagatg ctttattaaa
     1741 tacatggcca aaccaaataa catctttcag taattataga atgatttatt tggaataaaa
     1801 tttgtgctta tgaatgtata aaggtctata
//
