LOCUS       NM_009990               5013 bp    mRNA    linear   ROD 05-JUN-2024
DEFINITION  Mus musculus CAP-GLY domain containing linker protein 2 (Clip2),
            transcript variant 1, mRNA.
ACCESSION   NM_009990 XM_622910
VERSION     NM_009990.3
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 5013)
  AUTHORS   Collinson,J.M., Lindstrom,N.O., Neves,C., Wallace,K., Meharg,C.,
            Charles,R.H., Ross,Z.K., Fraser,A.M., Mbogo,I., Oras,K.,
            Nakamoto,M., Barker,S., Duce,S., Miedzybrodzka,Z. and Vargesson,N.
  TITLE     The developmental and genetic basis of 'clubfoot' in the peroneal
            muscular atrophy mutant mouse
  JOURNAL   Development 145 (3) (2018)
   PUBMED   29439133
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5013)
  AUTHORS   Zhang,X., Chen,M.H., Wu,X., Kodani,A., Fan,J., Doan,R., Ozawa,M.,
            Ma,J., Yoshida,N., Reiter,J.F., Black,D.L., Kharchenko,P.V.,
            Sharp,P.A. and Walsh,C.A.
  TITLE     Cell-Type-Specific Alternative Splicing Governs Cell Fate in the
            Developing Cerebral Cortex
  JOURNAL   Cell 166 (5), 1147-1162 (2016)
   PUBMED   27565344
REFERENCE   3  (bases 1 to 5013)
  AUTHORS   Couesnon,A., Offner,N., Bernard,V., Chaverot,N., Backer,S.,
            Dimitrov,A., Perez,F., Molgo,J. and Bloch-Gallego,E.
  TITLE     CLIPR-59: a protein essential for neuromuscular junction stability
            during mouse late embryonic development
  JOURNAL   Development 140 (7), 1583-1593 (2013)
   PUBMED   23482493
  REMARK    Erratum:[Development. 2013 Jun;140(11):2444]
REFERENCE   4  (bases 1 to 5013)
  AUTHORS   Schmidt,N., Basu,S., Sladecek,S., Gatti,S., van Haren,J.,
            Treves,S., Pielage,J., Galjart,N. and Brenner,H.R.
  TITLE     Agrin regulates CLASP2-mediated capture of microtubules at the
            neuromuscular junction synaptic membrane
  JOURNAL   J Cell Biol 198 (3), 421-437 (2012)
   PUBMED   22851317
REFERENCE   5  (bases 1 to 5013)
  AUTHORS   Stepanova,T., Smal,I., van Haren,J., Akinci,U., Liu,Z., Miedema,M.,
            Limpens,R., van Ham,M., van der Reijden,M., Poot,R., Grosveld,F.,
            Mommaas,M., Meijering,E. and Galjart,N.
  TITLE     History-dependent catastrophes regulate axonal microtubule behavior
  JOURNAL   Curr Biol 20 (11), 1023-1028 (2010)
   PUBMED   20471267
REFERENCE   6  (bases 1 to 5013)
  AUTHORS   Valero,M.C., de Luis,O., Cruces,J. and Perez Jurado,L.A.
  TITLE     Fine-scale comparative mapping of the human 7q11.23 region and the
            orthologous region on mouse chromosome 5G: the low-copy repeats
            that flank the Williams-Beuren syndrome deletion arose at
            breakpoint sites of an evolutionary inversion(s)
  JOURNAL   Genomics 69 (1), 1-13 (2000)
   PUBMED   11013070
REFERENCE   7  (bases 1 to 5013)
  AUTHORS   Doyle,J.L., DeSilva,U., Miller,W. and Green,E.D.
  TITLE     Divergent human and mouse orthologs of a novel gene
            (WBSCR15/Wbscr15) reside within the genomic interval commonly
            deleted in Williams syndrome
  JOURNAL   Cytogenet Cell Genet 90 (3-4), 285-290 (2000)
   PUBMED   11124535
REFERENCE   8  (bases 1 to 5013)
  AUTHORS   DeSilva,U., Massa,H., Trask,B.J. and Green,E.D.
  TITLE     Comparative mapping of the region of human chromosome 7 deleted in
            williams syndrome
  JOURNAL   Genome Res 9 (5), 428-436 (1999)
   PUBMED   10330122
REFERENCE   9  (bases 1 to 5013)
  AUTHORS   Hoogenraad,C.C., Eussen,B.H., Langeveld,A., van Haperen,R.,
            Winterberg,S., Wouters,C.H., Grosveld,F., De Zeeuw,C.I. and
            Galjart,N.
  TITLE     The murine CYLN2 gene: genomic organization, chromosome
            localization, and comparison to the human gene that is located
            within the 7q11.23 Williams syndrome critical region
  JOURNAL   Genomics 53 (3), 348-358 (1998)
   PUBMED   9799601
REFERENCE   10 (bases 1 to 5013)
  AUTHORS   De Zeeuw,C.I., Hoogenraad,C.C., Goedknegt,E., Hertzberg,E.,
            Neubauer,A., Grosveld,F. and Galjart,N.
  TITLE     CLIP-115, a novel brain-specific cytoplasmic linker protein,
            mediates the localization of dendritic lamellar bodies
  JOURNAL   Neuron 19 (6), 1187-1199 (1997)
   PUBMED   9427243
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC053048.1, AK045967.1 and BC121191.1.
            
            On Oct 23, 2013 this sequence version replaced NM_009990.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            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 :: AK045967.1, SRR9219382.26296.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1839              BC053048.1         1-1839
            1840-1944           AK045967.1         1684-1788
            1945-4098           BC053048.1         1840-3993
            4099-5013           BC121191.1         3638-4552
FEATURES             Location/Qualifiers
     source          1..5013
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 74.63 cM"
     gene            1..5013
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /note="CAP-GLY domain containing linker protein 2"
                     /db_xref="GeneID:269713"
                     /db_xref="MGI:MGI:1313136"
     exon            1..389
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            390..580
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     CDS             457..3600
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /note="isoform a is encoded by transcript variant 1;
                     CAP-Gly domain-containing linker protein 2; cytoplasmic
                     linker protein 2; cytoplasmic linker protein 1, 115 kDa"
                     /codon_start=1
                     /product="CAP-Gly domain-containing linker protein 2
                     isoform a"
                     /protein_id="NP_034120.2"
                     /db_xref="CCDS:CCDS39310.1"
                     /db_xref="GeneID:269713"
                     /db_xref="MGI:MGI:1313136"
                     /translation="MQKPSGLKPPGRGGKHSSPVGRPSVGSASSSVVASTSGSKEGSP
                     LHKQASGPSSSGAATTVSEKPGPKAAEVGDDFLGDFVVGERVWVNGVKPGVVQYLGET
                     QFAPGQWAGVVLDDPVGKNDGAVGGVRYFECPALQGIFTRPSKLTRQPTAEGSGSDTH
                     SVESLTAQNLSLHSGTATPPLTGRVIPLRESVLNSSVKTGNESGSNLSDSGSVKRGDK
                     DLHLGDRVLVGGTKTGVVRYVGETDFAKGEWCGVELDEPLGKNDGAVAGTRYFQCPPK
                     FGLFAPIHKVIRIGFPSTSPAKAKKTKRMAMGVSALTHSPSSSSISSVSSVASSVGGR
                     PSRSGLLTETSSRYARKISGTTALQEALKEKQQHIEQLLAERDLERAEVAKATSHICE
                     VEKEIALLKAQHEQYVAEAEEKLQRARLLVENVRKEKVDLSNQLEEERRKVEDLQFRV
                     EEESITKGDLETQTQLEHARIGELEQSLLLEKAQAERLLRELADNRLTTVAEKSRVLQ
                     LEEELSLRRGEIEELQHCLLQSGPPPADHPEAAETLRLRERLLSASKEHQRDSTLLQD
                     KYEHMLKTYQTEVDKLRAANEKYAQEVADLKAKVQQATTENMGLMDNWKSKLDSLASD
                     HQKSLEDLKATLNSGPGAQQKEIGELKALVEGIKMEHQLELGNLQAKHDLETAMHGKE
                     KEGLRQKLQEVQEELAGLQQHWREQLEEQASQHRLELQEAQDQCRDAQLRAQELEGLD
                     VEYRGQAQAIEFLKEQISLAEKKMLDYEMLQRAEAQSRQEAERLREKLLVAENRLQAA
                     ESLCSAQHSHVIESSDLSEETIRMKETVEGLQDKLNKRDKEVTALTSQMDMLRAQVSA
                     LENKCKSGEKKIDSLLKEKRRLEAELEAVSRKTHDASGQLVHISQELLRKERSLNELR
                     VLLLEANRHSPGPERDLSREVHKAEWRIKEQKLKDDIRGLREKLTGLDKEKSLSEQRR
                     YSLIDPASPPELLKLQHQLVSTEDALRDALNQAQQVERLVEALRGCSDRTQTISNSGS
                     ANGIHQPDKAHKQEDKH"
     exon            581..1137
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1138..1262
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1263..1476
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1477..1674
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1675..1778
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1779..1839
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1840..1944
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            1945..2880
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            2881..2938
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            2939..3022
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            3023..3179
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            3180..3339
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            3340..3525
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            3526..3588
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     exon            3589..4998
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4972..4977
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /note="hexamer: AATAAA"
     polyA_site      4998
                     /gene="Clip2"
                     /gene_synonym="B230327O20; CLIP-115; Clip1; Cyln2;
                     mKIAA0291; wbscr4; WSCR4"
                     /note="major polyA site"
ORIGIN      
        1 tttgttcgct ctctggccgc tgagctctcc tggcgctcgg cttctctcgg ctgggctcgg
       61 ctcaccttgg cagggctcca ccgggctccg ctctgctcgg tttctctcgc ctccgccccg
      121 tttggctcgg atcttcccgg ctcggccccg ctcggctcga ctcagctcgg ctccgcctcg
      181 gggcgcgcag gcagcggccg ggcttactgg atcggcccct ccctctatcc ccttctggac
      241 gtagatcctg tgcgaggccc ggactccgag cgcggagacc cggttagtgt atcggcgtga
      301 ggagaccggc gcagcatcct cgttcccggg acgcgcggac caagaggagg cgaggggtgt
      361 cgggtcctgg tcgctgctgg agctccaagg tgaccgagga tggcagagag gatgtgacca
      421 ttgtctgcct tggtctgccc ttctagtggc accgccatgc agaagcccag tggcctgaag
      481 ccccctggcc gaggggggaa gcactccagc cccgtgggca ggccgtccgt tgggtctgct
      541 tcatcttccg tggtggcctc gaccagtggc tccaaagaag ggtctcccct gcacaaacag
      601 gcatcgggcc cctcctcgtc tggagccgcc accaccgtct ctgagaagcc aggtccaaag
      661 gcggctgaag tgggtgatga cttcctggga gactttgtgg tgggcgagag ggtgtgggtg
      721 aatggcgtga agccaggcgt ggtgcagtac ctgggtgaga cacagtttgc gccaggccag
      781 tgggccggcg tggtcttgga cgacccggtg ggcaagaacg atggagctgt gggtggcgtg
      841 cgctacttcg agtgcccggc tctacagggc atcttcacgc ggccctccaa gctgacccgc
      901 cagcccaccg ctgagggctc gggcagtgat acgcactcgg tggaatccct cacggcccag
      961 aacctgtccc tgcattctgg cacggccacg cccccactca caggccgagt catccccctg
     1021 cgggagagtg ttcttaacag ctcagtgaag acgggcaatg agtctggttc caacctctcc
     1081 gacagtggtt ctgtgaagcg cggtgacaag gacctccacc tgggagaccg tgtgctggtt
     1141 ggtgggacga agaccggtgt ggtgcgatat gttggggaga cggactttgc caaaggcgag
     1201 tggtgtggtg tggagctgga tgagcccctc gggaagaacg acggggcggt ggcaggaacc
     1261 aggtacttcc agtgcccacc caagttcggt ctctttgcac caatccacaa ggtcatccga
     1321 attggcttcc catccaccag tccagccaag gccaagaaga ccaaacgcat ggccatgggt
     1381 gtctccgctt tgacccacag ccccagcagc tcttccatta gctctgtcag ctctgtggcc
     1441 tcctctgttg gtggccggcc cagccgcagt ggcctgctca cagagacctc ttcgcgctat
     1501 gcccggaaga tctcaggcac cacagctctg caggaggccc tgaaggagaa gcagcagcac
     1561 attgaacagc tgctggctga gcgcgacttg gagagagccg aagtagccaa ggctaccagc
     1621 catatctgtg aggtggagaa ggagatcgcc ctgctgaagg cacagcatga gcagtatgtt
     1681 gcagaagccg aggagaagct gcagcgggca cggttgctgg tggaaaacgt gaggaaagag
     1741 aaggtggatc tgtccaatca gctggaggag gagaggagga aggtggagga cctgcagttc
     1801 cgggtggaag aagaatccat caccaaagga gacttggaga cccagaccca gctggagcac
     1861 gcgcgcattg gggagctgga gcagagcctg ctattggaga aggcgcaggc cgagcggctg
     1921 ctcagagaat tagcggataa caggctgacc acagtggctg agaagtctcg ggtgctgcag
     1981 ctggaagaag agttgagcct gcggcgtggt gagatcgaag agctgcaaca ctgtctcctc
     2041 cagtcaggcc cgccacccgc agaccaccca gaggccgctg agactttgcg gctgcgagag
     2101 cggctgctgt cggctagcaa ggagcaccag cgagacagta ccttgctcca ggacaaatat
     2161 gagcacatgc taaagaccta ccagaccgag gtggacaagc tccgggcggc caatgagaag
     2221 tacgctcagg aggtggcaga cctcaaggcc aaggtccagc aggccaccac ggaaaacatg
     2281 gggctcatgg acaactggaa atccaagctg gactcgctgg cctccgatca ccagaaatcc
     2341 ctggaggacc tgaaggccac gctgaactct ggcccaggcg cccagcagaa ggagatcgga
     2401 gagttgaagg ccctggtaga gggcatcaag atggagcacc agctggagtt aggtaacctg
     2461 caggccaagc acgacttgga gacggccatg catgggaagg agaaggaggg cctgcggcag
     2521 aagctgcaag aggtccagga ggagctggcc gggctgcagc agcactggag ggagcagctg
     2581 gaggagcagg ccagccagca tcggctggag ctccaagaag cccaggacca atgtcgcgac
     2641 gcccagctgc gcgcgcagga gctagaggga ctggatgtgg agtaccgtgg ccaggctcaa
     2701 gccatcgagt tcctcaaaga gcagatctca ctggctgaaa agaagatgct agattacgag
     2761 atgctgcaga gggccgaagc ccagagcagg caggaggccg agcggctgcg ggaaaagctt
     2821 ctggtggctg agaatagact ccaggctgcc gagtccctgt gctcagccca gcacagccat
     2881 gtgatcgaat ccagtgacct ttctgaggag acaattcgga tgaaggagac tgtagagggc
     2941 ctgcaggaca agctgaacaa gagggacaaa gaggtgacag ccttgacatc ccagatggac
     3001 atgctcaggg cccaagtaag tgctctagaa aacaagtgca aatcaggaga gaagaagata
     3061 gattctctcc tgaaggagaa gaggcgccta gaggcagagc tggaggctgt gtctcggaag
     3121 acccacgatg cctccggcca gctggtccac atcagccagg agttgctgcg gaaagagagg
     3181 agtctgaacg agctgagggt gttgctgtta gaagccaatc gccactcccc agggcccgag
     3241 agagacctga gccgtgaagt acacaaagct gaatggcgga taaaggaaca gaaactgaag
     3301 gatgacatcc ggggcctgcg tgagaagctg accgggctgg acaaggagaa gtccctatca
     3361 gagcagagac gctactccct cattgaccca gcttcaccac ccgagctgct gaaactgcag
     3421 catcagttgg tgagcacgga agacgccctg cgggatgcgc tgaaccaggc ccagcaggtg
     3481 gagaggctgg tggaggccct gaggggctgc tcagacagga ctcagaccat cagcaattcc
     3541 ggttctgcca acggtattca ccagccagac aaggcccaca aacaggagga caaacactga
     3601 ccgcaaggga caccaaggac cgaccctact cacaccagaa gccctaccag gcttcccagc
     3661 agcgccacct tcaggcagga gtcagaactg tccccttgga gatgtgactg tgtttgtaac
     3721 aatattgtcc tcactgccgt ggacacgtgg acacgtccca cctgaacccc ctgccggacc
     3781 aggaggctcc cacagacacg gccttccaca gagcgcggta cagctgggcc cagccctgga
     3841 gaacctctct tgtcccaagg agcttcgtga actggcagag gctgaagcga tccagttggg
     3901 cctctcttga ctatagcagg ctgctgctgc ggcttgtctg gacacctggg gacttccccg
     3961 cctcccttcc cttctgtgtc cccaggtccc ccgcaggccc ctgagggatg gagcagggcc
     4021 cctgcttgga cacagaacac accaagaagg gcttcagaaa ctagggaggg aatgcttgac
     4081 tccacgcatt gagcccctcc tacacattgg tacaaggtcg cttaggcccc tctagtcagg
     4141 gaagatttgg gggtgacagg ctccttagtc ctcgacacca agctagtatg cgttacccac
     4201 ctcccatctg ctgcccggaa ggcactgagc agacagcttc agtattcagc gagcacgcga
     4261 acccacgctt cttaccttta ccttgagctg ggactggctt ggggcttaga accaagaaca
     4321 ggtagaaaat tccttaaaca aagcattcct acagcgtttt gctgggtgag aggaatcaaa
     4381 ctggttccct ttctttctgg gaacccctgc catgttactc taaagacccc agcaacccag
     4441 agagagccct gcttccatct tcccagggca ggaccacagt ggtaaatcct aaggatggcc
     4501 caggtggcct gtgtgagcgc cactaggcac cagaaggtgg cgctcacgct ctcgtcctta
     4561 gggaggagct gacttagcag cccctcagcc caaccccctg cttcctgttg gcttttgggt
     4621 agcacttgcc attaacaaca gcagcctaga actgacgctt tagtggcccg tctgcagagc
     4681 caaatcttgc tctttccagc acaatcgggc agctcacgga ttaggaatta acagccaaag
     4741 gctcccacgg aagggaccag aaggggctga gccccaccct ggagtgggct tgcacctggt
     4801 aggtgtgcaa gaagccattt ccccataagc actggccttt gatggccccc tcagcctacc
     4861 tggtgtggcc acccagctgt ggctcagcca tccccgccct ccctccgctc cccctccccc
     4921 tccctctccc cccagtggaa ttgtggaagt gtggcaagtc catgttcgga caataaagct
     4981 tgtgattgag gttcaggaaa aaaaaaaaaa aaa
//
