LOCUS       NM_016680               2207 bp    mRNA    linear   ROD 05-JUN-2024
DEFINITION  Mus musculus CLK4-associating serine/arginine rich protein
            (Clasrp), transcript variant L, mRNA.
ACCESSION   NM_016680
VERSION     NM_016680.5
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 2207)
  AUTHORS   Thoren,L.A., Norgaard,G.A., Weischenfeldt,J., Waage,J.,
            Jakobsen,J.S., Damgaard,I., Bergstrom,F.C., Blom,A.M., Borup,R.,
            Bisgaard,H.C. and Porse,B.T.
  TITLE     UPF2 is a critical regulator of liver development, function and
            regeneration
  JOURNAL   PLoS One 5 (7), e11650 (2010)
   PUBMED   20657840
  REMARK    GeneRIF: Loss of Upf2 during fetal liver development causes a
            change in expression of many genes, including Clasrp/Sfrs16 (Table
            S1).
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2207)
  AUTHORS   Katsu,R., Onogi,H., Wada,K., Kawaguchi,Y. and Hagiwara,M.
  TITLE     Novel SR-rich-related protein clasp specifically interacts with
            inactivated Clk4 and induces the exon EB inclusion of Clk
  JOURNAL   J Biol Chem 277 (46), 44220-44228 (2002)
   PUBMED   12169693
  REMARK    GeneRIF: Clasp is a binding partner of Clk4 and may be involved in
            the regulation of the activity of Clk kinase family
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CJ146179.1, BC051916.1 and
            BC060092.1.
            
            On Aug 21, 2014 this sequence version replaced NM_016680.4.
            
            Summary: The protein encoded by this gene contains serine/arginine
            (SR) dipeptide repeat domains, and is thought to be involved in the
            regulation of alternative splicing. This protein is thought to
            interact with, and be phosphorylated by, Clk4. Alternative splicing
            results in multiple transcript variants. [provided by RefSeq, Aug
            2014].
            
            Transcript Variant: This variant (L, PMID:12169693) represents the
            shortest transcript and encodes the protein.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC010728.1, SRR13422590.483691.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-25                CJ146179.1         1-25
            26-1781             BC051916.1         1-1756
            1782-2172           BC051916.1         1761-2151
            2173-2207           BC060092.1         4541-4575
FEATURES             Location/Qualifiers
     source          1..2207
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 9.93 cM"
     gene            1..2207
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /note="CLK4-associating serine/arginine rich protein"
                     /db_xref="GeneID:53609"
                     /db_xref="MGI:MGI:1855695"
     exon            1..75
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            76..191
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     CDS             93..2099
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /note="splicing factor, arginine/serine-rich 16
                     (suppressor-of-white-apricot homolog, Drosophila); Clk4
                     associating SR-related protein; suppressor of
                     white-apricot homolog 2; serine/arginine-rich splicing
                     factor 16"
                     /codon_start=1
                     /product="CLK4-associating serine/arginine rich protein"
                     /protein_id="NP_057889.3"
                     /db_xref="CCDS:CCDS52061.1"
                     /db_xref="GeneID:53609"
                     /db_xref="MGI:MGI:1855695"
                     /translation="MWHEARKHERKLRGMMVDYKKRAERRREYYEKIKKDPAQFLQVH
                     GRACKVHLDSAVALAAESPVNMMPWQGDTNNMIDRFDVRAHLDHIPDYTPPLLTTISP
                     EQESDERKCNYERYRGLVQNDFAGISEEQCLYQIYIDELYGGLQRPSEDEKKKLAEKK
                     ASIGYTYEDSTVAEVEKVAEKPEEEESPAEEESNSDEDEVIPDIDVEVDVDELNQEQV
                     ADLNKQATTYGMADGDFVRMLRKDKEEAEAIKHAKALEEEKAMYSGRRSRRQRREFRE
                     KRLRGRKISPPSYARRDSPTYDPYKRSPSESSSESRSRSRSPSPGREEKITFITSFGG
                     SDEEAAAAAAAAAASGAAPGKPPAPPQTGGPAPGRNASTRRRSSSSSASRTSSSRSSS
                     RSSSRSRRGYYRSGRHARSRSRSWSRSRSRSRRYSRSRSRGRRHSDGGSRDGHRYSRS
                     PARRGGYVPRRRSRSRSRSGDRYKRGARGPRHHSSSHSRSSWSLSPSRSRSVTRSGSR
                     SQSRSRSRSQSHSQSQSHSPSPPREKLTRPAASPAVGEKLKKTEPAAGKETGAAKPKL
                     TPQERLKLRMQKALNRQFKADKKAAQEKMIQQEHERQEREDELRAMARKIRMKERERR
                     EKEREEWERQYSRQSRSPSPRYSREYSSSRRRSRSRSRSPHYRH"
     exon            192..289
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            290..391
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            392..471
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            472..556
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            557..705
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            706..802
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            803..881
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            882..955
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            956..997
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            998..1213
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1214..1483
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1484..1741
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1742..1781
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1782..1842
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1843..1901
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1902..1948
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            1949..2031
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            2032..2056
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     exon            2057..2177
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2147..2152
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /note="hexamer: AATAAA"
     polyA_site      2172
                     /gene="Clasrp"
                     /gene_synonym="Clasp; Sfrs16; Srsf16; Swap2"
                     /note="major polyA site"
ORIGIN      
        1 tcaacctctc acttccgctt ccggtgtggg tcgtgagcgc gcgcgagcgc agcagtggga
       61 ggcggcgact ggccggcaga agcctcagca ccatgtggca cgaggctcgg aagcatgagc
      121 ggaaacttcg aggcatgatg gtggactaca agaagagggc ggagcggcgt cgggagtact
      181 atgagaagat taagaaagac cccgctcagt tcctgcaggt gcatggccga gcctgcaagg
      241 ttcacctgga ttctgcagtt gccctggctg ctgagagccc tgtgaacatg atgccctggc
      301 agggggacac caacaacatg attgaccgct ttgatgttcg tgcacatcta gaccacatcc
      361 ctgactacac ccccccactg ctcaccacca tctccccgga acaggagtca gacgagcgga
      421 aatgtaacta cgagcggtac agaggcctgg tgcagaacga cttcgccggc atctctgagg
      481 aacagtgctt gtatcagatc tacattgatg agctgtacgg aggcctgcag agacccagcg
      541 aggatgagaa gaagaagctg gcagagaaga aggcttccat cggctacacc tatgaagata
      601 gtactgtggc cgaggtagag aaggtggctg agaagccaga ggaggaagag tcaccagcag
      661 aggaggagag caactcggat gaagatgagg tcatccccga catcgacgtg gaggtggatg
      721 tggatgagct gaaccaggag caggtggctg atctcaataa gcaggccaca acctacggca
      781 tggctgatgg agactttgtc aggatgctac ggaaagataa ggaggaggca gaggccatca
      841 aacatgccaa agccctggag gaggagaaag ccatgtactc gggccgtcgt tcccggcgac
      901 agcgaagaga gttccgggag aagcggctga gaggccgcaa gatcagccct cccagttatg
      961 cccgccgaga cagccccacc tatgacccct ataagcggtc accttcagaa tctagttccg
     1021 agtcccgctc ccgctctcgc tccccgagcc caggccgcga ggaaaaaatc actttcatca
     1081 ccagttttgg aggcagcgac gaggaggcag ctgctgcagc tgctgcagcc gccgcatccg
     1141 gggctgcccc agggaagccc cctgcgcctc cccaaacggg tggccccgct ccaggccgta
     1201 atgccagcac ccgccgccgc tcctcttcgt cctccgcctc caggacctcc agctcccgat
     1261 ccagttcgcg ctccagttcg cgctcccgcc gtggctatta ccgctctggc cgccacgcac
     1321 gctcccgctc ccgctcctgg tcccgctcac gctcccgttc ccggcgctac tcacgctccc
     1381 gcagccgcgg acggcggcac tcagacggcg gttcccgcga cggacaccgc tactcacgct
     1441 cccctgcccg gcgcggcggg tacgtgcccc gccgaaggag caggagccgc tcccgttcag
     1501 gtgaccgcta taagcggggt gcccggggcc ccaggcacca tagcagcagt catagccgca
     1561 gcagctggtc cctcagccct tcccgaagcc gcagtgtgac ccggagcgga agccgcagcc
     1621 agagccggag ccgaagccgc agccagagcc acagccagag ccagagtcac tcaccatcgc
     1681 ccccaaggga gaagctgacc aggccggcag cgtcccctgc tgtgggcgag aagctgaaaa
     1741 agaccgagcc tgccgctggt aaagagacag gagctgccaa acccaagctg accccacagg
     1801 agaggctgaa gcttcggatg cagaaggctc tgaaccgcca gttcaaggcg gataagaagg
     1861 cagctcagga gaagatgatc cagcaggagc atgagcggca ggagcgagag gatgaactgc
     1921 gagccatggc ccgaaagatc cgaatgaagg agcgagagcg gagagagaag gagagagaag
     1981 aatgggaacg ccaatatagc cgccagagcc gctcgccctc cccacgctac agtcgagagt
     2041 acagttcctc ccgaaggcgc tcaaggtcca ggtcccgaag cccccattac agacattagg
     2101 cagaaaacgg agttggggct gttatgctgc tgggtttctg tagtgaaata aaagctaaca
     2161 ttatttaatg gacttcaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaa
//
