LOCUS       NM_170673               2779 bp    mRNA    linear   ROD 02-JUN-2024
DEFINITION  Mus musculus copine family member IX (Cpne9), mRNA.
ACCESSION   NM_170673
VERSION     NM_170673.3
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 2779)
  AUTHORS   Nadal-Nicolas,F.M., Kunze,V.P., Ball,J.M., Peng,B.T., Krishnan,A.,
            Zhou,G., Dong,L. and Li,W.
  TITLE     True S-cones are concentrated in the ventral mouse retina and wired
            for color detection in the upper visual field
  JOURNAL   Elife 9, e56840 (2020)
   PUBMED   32463363
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2779)
  AUTHORS   Creutz,C.E., Tomsig,J.L., Snyder,S.L., Gautier,M.C., Skouri,F.,
            Beisson,J. and Cohen,J.
  TITLE     The copines, a novel class of C2 domain-containing,
            calcium-dependent, phospholipid-binding proteins conserved from
            Paramecium to humans
  JOURNAL   J Biol Chem 273 (3), 1393-1402 (1998)
   PUBMED   9430674
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK137422.1 and AK047571.1.
            
            On Oct 4, 2005 this sequence version replaced NM_170673.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK137422.1, AK042692.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164132
                                           [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
            1-1894              AK137422.1         2-1895
            1895-2779           AK047571.1         2910-3794
FEATURES             Location/Qualifiers
     source          1..2779
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 52.75 cM"
     gene            1..2779
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="copine family member IX"
                     /db_xref="GeneID:211232"
                     /db_xref="MGI:MGI:2443052"
     exon            1..235
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     CDS             168..1829
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="copine IX"
                     /codon_start=1
                     /product="copine-9"
                     /protein_id="NP_733773.2"
                     /db_xref="CCDS:CCDS20413.1"
                     /db_xref="GeneID:211232"
                     /db_xref="MGI:MGI:2443052"
                     /translation="MSLSGASERSVPATKIEITVSCRNLLDLDTFSKSDPMVVLHTQS
                     RASQEWREFGRTEVIDNTLNPDFVRKFVLDYFFEEKQNLRFDVYNVDSKANISKPKDF
                     LGQAFLALGEVIGGQGSRVERPLTGVPGKKCGTILLTAEELSNCRDIATMQLCANKLD
                     KKDFFGKSDPFLVFYRSNEDGTFTICHKTEVVKNTLNPVWQPFSIPVRALCNGDYDRT
                     VKIDVYDWDRDGSHDFIGEFTTSYRELSKAQNQFTVYEVLNPRKKCKKKKYTNSGTVT
                     LLSFSVDSEFTFVDYIKGGTQLNFTVAIDFTASNGNPLQPTSLHYMSPYQLSAYAMAL
                     KAVGEIIQDYDSDKLFPAYGFGAKLPPEGRISHQFPLNNNDEDPNCAGIEGVLESYFQ
                     SLRTVQLYGPTYFAPVINQVARAAAKISDGSQYYVLLIITDGVISDMTQTKEAIVSAS
                     SLPMSIIIVGVGPAMFEAMEELDGDDVRVSSRGRYAERDIVQFVPFRDYVDRSGNQVL
                     SMARLAKDVLAEIPEQLLSYMRTRDIQPRPPPPASPNPTPAPEQP"
     exon            236..276
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            277..323
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            324..427
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            428..464
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            465..467
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            468..544
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            545..608
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            609..712
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            713..817
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            818..859
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            860..935
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            936..989
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            990..1051
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..1098
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1099..1280
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1281..1408
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1409..1511
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1512..1569
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1570..1643
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..2779
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2016..2021
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="hexamer: AATAAA"
     polyA_site      2035
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="major polyA site"
     regulatory      2360..2365
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="hexamer: AATAAA"
     polyA_site      2374
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
     regulatory      2516..2521
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="hexamer: CATAAA"
     regulatory      2529..2534
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
                     /note="hexamer: AATAAA"
     polyA_site      2534
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
     polyA_site      2546
                     /gene="Cpne9"
                     /gene_synonym="A730016F12Rik; mKIAA4217"
ORIGIN      
        1 atctggagcc gctgctgctg gtggccactg tcagggcgcg agcagcggag cgcacacaag
       61 gctggagaga gccgctgcct ccgcacatgg gccggcctcg ccaccgcccc tagcttcggc
      121 acccggggtc tcgcagcccc tacgcggctt tggccattgg accagtcatg tctctcagcg
      181 gagcctcgga gcgtagcgtc ccggccacca agattgaaat tactgtgtcg tgccggaatc
      241 tgctagacct ggatacattc tccaagtcgg accccatggt ggtgcttcac acgcagagcc
      301 gggccagcca ggagtggcgg gagttcggac gaaccgaggt gattgacaac acactgaatc
      361 cagacttcgt gcgcaaattc gttctcgact atttctttga ggaaaagcaa aatctccgct
      421 tcgatgtgta caacgtcgac tctaaagcca atatctccaa accgaaggat ttcctgggac
      481 aagcattcct ggccctggga gaggtgattg gaggccaggg cagccgtgtg gagcgacctc
      541 ttacgggtgt gccaggaaag aagtgtggga ccatactgct gaccgccgag gagctgagca
      601 actgcaggga cattgccacc atgcagctgt gtgcaaacaa gctggacaaa aaggacttct
      661 ttgggaagtc agaccctttc cttgtgttct acaggagcaa tgaagatggc acgttcacca
      721 tctgccacaa gacagaggtt gtgaaaaaca cactgaaccc agtatggcag cccttcagca
      781 tccctgtgcg ggcactgtgc aacggagact atgacagaac agtgaagatc gacgtatatg
      841 actgggaccg agatggaagc cacgacttca ttggcgagtt cacaaccagc taccgggagc
      901 tgagcaaggc ccagaatcag ttcacagtgt acgaggtact taaccctcgg aagaaatgca
      961 agaagaagaa atataccaac tcggggaccg tgacgctcct ttccttctct gtggactcag
     1021 aattcacttt tgtggattac atcaagggag ggacacagct gaacttcacc gtagctattg
     1081 acttcactgc ttccaatggg aatcccctgc agcctacgtc gctgcactac atgagtccct
     1141 accagctcag cgcctatgcc atggccctca aggcagtggg agagatcatc caggactacg
     1201 acagtgacaa gctcttccca gcctatggtt ttggggccaa gctgccccca gaggggcgga
     1261 tctcccacca gttccccctg aacaataacg atgaagaccc caactgtgca ggcattgagg
     1321 gtgtgctaga gagttacttc cagagtctgc gcacagtgca gctctatggg cccacttact
     1381 ttgcacctgt catcaaccag gtggccaggg ctgcagccaa aatctcggat ggttcccagt
     1441 actacgttct gctcattatc actgacggcg tcatctccga catgacacag accaaagagg
     1501 ccatcgtcag tgcctcctca ctgcccatgt ctatcattat tgtcggggtc ggacctgcca
     1561 tgtttgaggc aatggaagag ctggatggtg atgatgtacg tgtatcctcc aggggacgct
     1621 atgcagagcg ggacatcgtt cagtttgtcc cattccgaga ttatgttgac cgatcgggga
     1681 accaggtgct gagcatggcc cgactggcca aggatgtact agctgagatt cctgaacagt
     1741 tgctctccta tatgcgcacc agggacatcc agcctcgacc tcctccccct gcgagcccca
     1801 acccaacccc agccccagaa cagccctgag gacttcacat agccaatgct tagcagtctg
     1861 cttacctgtc tacccactgc tggaagttaa aggcacctgg agctctgaac ctgaccagga
     1921 gggccatcta ggttgatcag tgctggctga caagcttttt gccccctgac ttcagaaagg
     1981 cttggcatga tcaccaccta ccgcctcatg acaacaataa agctcatctt acgcagtctc
     2041 tgtctcatgg gtgttggaga gggagactga gggacccaga gcctggggtc acatcaagag
     2101 tgagggagta atgataactt cagtgaggtt aacatccatc ctaatgcact catccagtca
     2161 cttctatata aaatttcaaa tattgtaaga aaacgtgtgg gctggtgaga tggctcagtg
     2221 gctaagagaa ctgactgccc ttccaaaggt cctgagttca aatcccagca accacactgt
     2281 ggttcacaac caccattaat gagatttgat accctcttct tgtgtgtctg aagacagcta
     2341 cagtgtactt atatataata ataaataaat ttttgggccg gagcaagcaa gatctgagca
     2401 agcagggttg atcagagcga gcagaggtcc taaaattcaa tttccaacaa ccacatgaag
     2461 gttcaggtgt acagctactg tgtactcatc tgtacagcta cagtgtactc acatacataa
     2521 aataaataaa taaatcttta agaaaacttg ttatacatac ttgaacactt ttttcctcag
     2581 gacagaccca tagctttcat gagattttct aaaaggttct tcaccccaaa agagctagct
     2641 ttaagacaac tgtgaggtcc tagtggtaca agcctgtaat cacaagttca aggccagtgt
     2701 aggcaactta tctggacttt gtcattaaaa aaaaaagttt tgttttgttt tttaataaaa
     2761 aagaaacggc tgttgtgat
//
