LOCUS       NM_001408391            4543 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus coiled-coil domain containing 40 (Ccdc40), transcript
            variant 2, mRNA.
ACCESSION   NM_001408391 XM_017314400
VERSION     NM_001408391.1
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 4543)
  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 4543)
  AUTHORS   Ho,K.H., Candat,A., Scarpetta,V., Faucourt,M., Weill,S., Salio,C.,
            D'Este,E., Meschkat,M., Wurm,C.A., Kneussel,M., Janke,C.,
            Magiera,M.M., Genovesio,A., Meunier,A., Sassoe-Pognetto,M.,
            Brill,M.S., Spassky,N. and Patrizi,A.
  TITLE     Choroid plexuses carry nodal-like cilia that undergo axoneme
            regression from early adult stage
  JOURNAL   Dev Cell 58 (23), 2641-2651 (2023)
   PUBMED   37890489
REFERENCE   3  (bases 1 to 4543)
  AUTHORS   Moreau,M.X., Saillour,Y., Elorriaga,V., Bouloudi,B., Delberghe,E.,
            Deutsch Guerrero,T., Ochandorena-Saa,A., Maeso-Alonso,L.,
            Marques,M.M., Marin,M.C., Spassky,N., Pierani,A. and Causeret,F.
  TITLE     Repurposing of the multiciliation gene regulatory network in fate
            specification of Cajal-Retzius neurons
  JOURNAL   Dev Cell 58 (15), 1365-1382 (2023)
   PUBMED   37321213
REFERENCE   4  (bases 1 to 4543)
  AUTHORS   Sugrue,K.F. and Zohn,I.E.
  TITLE     Mechanism for generation of left isomerism in Ccdc40 mutant embryos
  JOURNAL   PLoS One 12 (2), e0171180 (2017)
   PUBMED   28182636
  REMARK    GeneRIF: A model to explain how left isomerism arises in a
            proportion of Ccdc40lnks mutants is proposed.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4543)
  AUTHORS   Olbrich,H., Cremers,C., Loges,N.T., Werner,C., Nielsen,K.G.,
            Marthin,J.K., Philipsen,M., Wallmeier,J., Pennekamp,P., Menchen,T.,
            Edelbusch,C., Dougherty,G.W., Schwartz,O., Thiele,H., Altmuller,J.,
            Rommelmann,F. and Omran,H.
  TITLE     Loss-of-Function GAS8 Mutations Cause Primary Ciliary Dyskinesia
            and Disrupt the Nexin-Dynein Regulatory Complex
  JOURNAL   Am J Hum Genet 97 (4), 546-554 (2015)
   PUBMED   26387594
REFERENCE   6  (bases 1 to 4543)
  AUTHORS   Becker-Heck,A., Zohn,I.E., Okabe,N., Pollock,A., Lenhart,K.B.,
            Sullivan-Brown,J., McSheene,J., Loges,N.T., Olbrich,H.,
            Haeffner,K., Fliegauf,M., Horvath,J., Reinhardt,R., Nielsen,K.G.,
            Marthin,J.K., Baktai,G., Anderson,K.V., Geisler,R., Niswander,L.,
            Omran,H. and Burdine,R.D.
  TITLE     The coiled-coil domain containing protein CCDC40 is essential for
            motile cilia function and left-right axis formation
  JOURNAL   Nat Genet 43 (1), 79-84 (2011)
   PUBMED   21131974
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL672140.7.
            
            On Jun 17, 2022 this sequence version replaced XM_017314400.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR9219380.45437.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849381, SAMN00849384
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-56                AL672140.7         69436-69491
            57-129              AL672140.7         70951-71023
            130-945             AL672140.7         71802-72617
            946-1090            AL672140.7         74981-75125
            1091-1245           AL672140.7         76473-76627
            1246-1329           AL672140.7         78193-78276
            1330-1549           AL672140.7         78358-78577
            1550-1707           AL672140.7         82756-82913
            1708-1830           AL672140.7         83042-83164
            1831-1952           AL672140.7         83326-83447
            1953-2196           AL672140.7         86164-86407
            2197-2379           AL672140.7         86497-86679
            2380-2625           AL672140.7         91268-91513
            2626-2839           AL672140.7         92132-92345
            2840-3009           AL672140.7         93579-93748
            3010-3101           AL672140.7         93949-94040
            3102-3222           AL672140.7         94671-94791
            3223-3411           AL672140.7         100184-100372
            3412-3570           AL672140.7         103404-103562
            3571-4543           AL672140.7         104595-105567
FEATURES             Location/Qualifiers
     source          1..4543
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 83.35 cM"
     gene            1..4543
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /note="coiled-coil domain containing 40"
                     /db_xref="GeneID:207607"
                     /db_xref="MGI:MGI:2443893"
     exon            1..56
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             28..3819
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /note="isoform 2 is encoded by transcript variant 2;
                     coiled-coil domain-containing protein 40"
                     /codon_start=1
                     /product="coiled-coil domain-containing protein 40 isoform
                     2"
                     /protein_id="NP_001395320.1"
                     /db_xref="GeneID:207607"
                     /db_xref="MGI:MGI:2443893"
                     /translation="MAEPEDQADGRSQQEGQQSSAEEDSEQQYTEGPEVSPQLEDNGQ
                     EIDEGRDPTRSPEEDITTEGGGGSEGEMMDAEKVSTDGEAISEGEVGSNGETPPETEV
                     EFIGETAPDTDVEFIGETSPGTDVEPTGESIQETEVESIGEATPGMDVEPIKKTMTEL
                     NVESIGEETSETDVDSIRKALRGIDLESITVAYPPKKAKHRKVRPQAEVESTGRAAPE
                     GELEVSDHEKVEALLDELDELSEIVSSPEVSYSDISPLEMGEDDTNVSATSTDTFQQG
                     IYEPIEPIEPTEPPEPAEPPKPAETPEDSTVRAPAHPYQRDFPMGARHRFRLSIMGSL
                     TPSDTDDLPLETDEPPQQESVQSTPRALEETRIQFLDQVQSLSPEALLDRATEGSDEA
                     EEEGSQLIVLDPDHPLMIRFQEALKGYLNRQMDKLKLDVQELDVATKQTRSQRQELGV
                     NLYGVQQHLARLQMQLEKSHDRHSLVACERRRKEEELQCARSVYNKTCQTANEERKKL
                     AALQTEVESLALHLFYMQNIEQDVRDDIQVMKQVVRKTETEKMHAEVEKKKQDLFVDQ
                     LTERSHQLEENIALFEAQYLSQAEDTRVLKKAVTEAITEIDTIAVEKKRILQQWTTSL
                     VGMKHRNEAYKTVMDALRECQHQVKSTDSEIEVCKKSIMQEEEKNEKLARLLNRAETE
                     ATLVQKMTAQCLSKQEALQTEFNTYQLALQDTEEMLNKGYVEHSAVLSELQATRQAFH
                     QEQELRQKMDMSMVDKLQEQGTSSKMTKYFHQLLRKLQKENTNLVTHLSKIDGDIAQA
                     TLDITNTNCKIDMHKKTLAEMDKEVKRFNDLITNSESEIARRTILIERKQSLINFFNK
                     QLEQMVSELGGEEAGPLELEIKRLSKLTEEYNTGVAEAQMTWLRLQQELVQVTHEREE
                     QLVSVDQLKKEVHIMEQKKLRIESKIAHEKKEQKIVSRHMRDLDNDLSKLNMLLDKNR
                     CSSEELEQNNIATETEFLRTLKDSERETIQMQEKLMELSEEKATLLNSFMEAEHQIML
                     WEKKIQLAKEMRSSVDSETGQTEIRAMKAEIHRMKVRHGQLLKQQEKMIRDMELAVAR
                     RETIVVQAEGQSKIDKKVITKTEFHYQQRELQKKVREMHKATDDCTNTISELEETQKF
                     LSSSLQEKQQLLSEMQATTDVLEEEINQLTALKRQNLLEIVTLQTRGKHLQAAIEGKY
                     VFLHRNSRSQLMERKRLSVRLSQLNKVLSSVQEDYPQYQEVLQSIQQKIATKLETPEP
                     S"
     exon            57..129
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            130..945
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            946..1090
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1091..1245
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1246..1329
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1330..1549
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1550..1707
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1708..1830
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1831..1952
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1953..2196
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2197..2379
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2380..2625
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2626..2839
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2840..3009
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3010..3101
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3102..3222
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3223..3411
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3412..3570
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            3571..4543
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4524..4529
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /note="hexamer: AATAAA"
     polyA_site      4543
                     /gene="Ccdc40"
                     /gene_synonym="B930008I02Rik"
                     /note="major polyA site"
ORIGIN      
        1 gttgatggcg tagcctagca acgagagatg gcggagccgg aggaccaggc tgacggcagg
       61 tcacagcagg aaggccaaca gtcttctgcc gaagaggact cggagcagca gtatactgaa
      121 ggccctgagg tatcaccaca gctggaagac aatggccaag aaattgatga gggcagagac
      181 cccaccagaa gtcctgaaga ggacattaca actgaaggcg ggggcggatc tgaaggggaa
      241 atgatggatg ctgagaaagt cagcacggat ggggaagcca tctctgaagg agaagtgggg
      301 tccaatggag agactccccc agaaacagaa gtggaattca ttggagagac cgctccagac
      361 acagatgtgg aattcattgg agagacctcc ccaggaacag acgtggaacc cactggagag
      421 agcatacagg aaacagaagt tgaatccatc ggagaggcta ccccaggaat ggacgtggaa
      481 cccattaaaa agaccatgac agaactcaac gttgaatcca tcggagaaga aacctcagaa
      541 acagacgtgg actccattag gaaggccctc cgaggaatag acttggaatc tatcacagtt
      601 gcctatccgc caaaaaaggc taaacacaga aaggtcagac cccaagcgga agttgaatcc
      661 actggaagag ctgccccaga aggagaatta gaagtttctg accacgagaa agtagaagcc
      721 cttctcgatg agttggatga gctctctgag atagtcagct ctcccgaggt ctcctactct
      781 gacatcagtc ccttggagat gggtgaagat gacacaaacg tctcagccac atcaaccgac
      841 acattccagc aaggcatata tgagcccata gaacccatag agcccacaga gcccccagag
      901 cctgcagagc ccccaaagcc tgcagagacc ccagaggaca gcacggtgag agccccagcg
      961 catccctatc aaagagactt cccaatgggg gcacgacacc gattcagact gagcatcatg
     1021 ggaagtctga ctccctcgga cacggacgat cttcccctgg aaacggacga gccgcctcag
     1081 caagagtcag tgcagtcaac tcccagagcc cttgaagaaa cccggataca gttcctagac
     1141 caggtccaga gcctcagccc ggaggccctg ctcgatagag caactgaagg gagtgatgaa
     1201 gcagaggagg aaggctccca gctgatcgtg ctggacccag accatcctct gatgatcaga
     1261 ttccaggagg ctctgaaggg ctacctcaac cggcagatgg acaaactgaa gctggacgtc
     1321 caagagctgg atgtggccac caagcaaacc cgaagccaga ggcaggagct gggcgtgaac
     1381 ctctacgggg tccagcagca cctggcccgc ctgcagatgc agctggagaa gagccatgac
     1441 cggcactctc tggtggcctg tgagcggaga aggaaggagg aggagctgca atgcgcacgc
     1501 tccgtctaca acaagacctg ccagaccgcc aatgaggaac gaaagaagtt ggccgccctg
     1561 cagacagagg tggagagcct ggccctgcac ctcttctaca tgcagaacat agagcaggac
     1621 gtgcgcgatg acatccaagt catgaagcag gtggtgagga agaccgagac ggagaagatg
     1681 cacgccgagg tggagaagaa aaagcaggac ctgtttgtgg accagctcac cgaaaggtca
     1741 caccagctag aagaaaacat cgccctgttt gaggctcaat acttgtccca ggctgaggac
     1801 acccgggtcc tcaagaaagc agtgactgag gccatcacag agattgacac cattgccgtg
     1861 gagaagaagc gaatcctaca gcagtggacc accagcctag tgggcatgaa gcaccgtaac
     1921 gaggcataca agacagtgat ggatgcgctc agggagtgtc agcatcaggt gaagtccacc
     1981 gacagtgaga tcgaagtctg caagaagtcc atcatgcagg aggaagagaa gaatgagaag
     2041 ctggcccgtc tcctgaaccg cgcagagaca gaagccacac tggtgcagaa aatgaccgcc
     2101 cagtgcttaa gcaagcaaga ggctctgcag acggagttta acacgtacca gctcgccctg
     2161 caggacacgg aggagatgct gaacaagggc tatgtggaac actcggcagt cttgagcgag
     2221 ctccaggcca cacgccaggc tttccaccag gaacaggagc tacggcaaaa gatggacatg
     2281 tccatggtgg acaagctgca ggaacagggg acctccagca agatgaccaa gtactttcat
     2341 cagctccttc ggaagctgca aaaggaaaac accaacctgg tgacacatct ttcaaaaatt
     2401 gacggcgata tcgcccaggc caccctggac atcaccaaca ccaactgcaa aatagacatg
     2461 cataagaaga cgctggcaga gatggacaag gaggtaaaga ggttcaacga tctcatcacc
     2521 aacagcgaga gcgagatcgc ccggcgcacc atcctcattg agaggaagca gagcctcatc
     2581 aacttcttca acaagcagct ggaacagatg gtgtcggagc tgggggggga agaagctgga
     2641 cccctggaac tggagatcaa aaggctgtcg aagctgacag aagagtacaa cacgggagtg
     2701 gctgaggcgc agatgacctg gttgcgcctg cagcaggaac tggtccaggt cacgcatgag
     2761 cgcgaggagc agctggtgtc cgtggaccaa ctgaagaagg aggtgcacat catggaacaa
     2821 aagaagcttc gcatagagag caagattgca catgagaaga aggaacaaaa gatagtgagc
     2881 cgccacatga gggacctgga caacgacctg agcaagctca acatgctgtt ggacaagaac
     2941 cgatgcagtt cggaagagct ggagcagaac aatatagcaa ctgagacgga gtttctgcgc
     3001 acgctgaagg actcagaaag agagaccatt caaatgcagg aaaagctgat ggaactctct
     3061 gaggaaaagg ccaccctcct caacagcttc atggaggcag agcaccaaat catgctgtgg
     3121 gagaagaaaa tccaactggc caaggagatg cgcagctcgg tggattctga gaccgggcag
     3181 acagagatcc gtgctatgaa ggccgagatc cacaggatga aggttaggca cgggcagcta
     3241 ctgaagcagc aggagaagat gatccgtgac atggagttgg ctgtggcccg cagggagacc
     3301 atcgtcgtcc aggctgaagg gcagagcaag atagacaaga aagtaatcac caagacagag
     3361 ttccactacc agcagcgcga gctgcagaag aaagtcaggg agatgcacaa ggccacagat
     3421 gactgcacca acaccatctc agaactggaa gaaactcaaa agttcctaag cagctccctc
     3481 caggagaagc agcaactgct gtcagaaatg caggctacca cagatgttct tgaagaggag
     3541 atcaaccagc taacagctct caaacggcag aaccttctgg agatcgtgac cctgcagacc
     3601 cgtggcaagc acctgcaggc cgccattgag gggaaatatg tgttcctgca ccgcaacagc
     3661 aggtcccagc tgatggagcg taagcgcctg agcgtccggc tgtcccagct caacaaggtc
     3721 ctctccagcg tgcaggaaga ctacccccag taccaggagg tgctgcagag cattcaacag
     3781 aagatcgcca ccaagctgga gaccccagag ccctcctaga cagcaccggg cctgcacctt
     3841 tcagggctga cttgcgggca gacccaggga gtcaccacat gttctgaaaa agccacgtgt
     3901 ctcctagagc gacacccagt ctaagaaaca ccggcaggcc agacacgtga ttcaaagcct
     3961 ctctgctgtt cacaccaggt gtaaagcagc caccggatcc gacgctctga gcacgcccac
     4021 attacctggg tgtgaaaaaa acccactctc ctgttggact taaaaccatc ctgttggcag
     4081 tcctacggtc acatcagtgc ctctcactgt cctgggacag accctcaatt ttgcggagca
     4141 agtaatgcag agaagaagcc aggagtaagg tggacttatt tgagccctgg gaatgcctgt
     4201 tccagccctc tgaagcccag aagataccct cattctccac tccacagaaa gctcggcctt
     4261 ctcctgcccc catttcccag gaagccttaa attagacaga aacccaaaga ccgaagccgt
     4321 gggacccaga agtccaagga tagcaaatgc ctatggagca gaaactactt cagaaaaggg
     4381 acacctgtct ctcatccacc gacctctgac ctctcttctt cacctctgcc tcccctaccc
     4441 tggggtttct gggcaccagt tacctttttc cttgtgtaga tgagaaacgg attatttcag
     4501 ttttaaactt gaacagcaga aaaaataaag tttacaaaag ctg
//
