LOCUS       NM_001419018            2847 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus clusterin associated protein 1 (Cluap1), transcript
            variant 2, mRNA.
ACCESSION   NM_001419018
VERSION     NM_001419018.1
KEYWORDS    RefSeq.
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 2847)
  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 2847)
  AUTHORS   Shukla,S., Haenold,R., Urbanek,P., Frappart,L., Monajembashi,S.,
            Grigaravicius,P., Nagel,S., Min,W.K., Tapias,A., Kassel,O.,
            Heuer,H., Wang,Z.Q., Ploubidou,A. and Herrlich,P.
  TITLE     TRIP6 functions in brain ciliogenesis
  JOURNAL   Nat Commun 12 (1), 5887 (2021)
   PUBMED   34620853
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2847)
  AUTHORS   Lamri,L., Twan,W.K., Katoh,T.A., Botilde,Y., Takaoka,K., Ikawa,Y.,
            Nishimura,H., Fukumoto,A., Minegishi,K., Mizuno,K. and Hamada,H.
  TITLE     Ciliogenesis-coupled accumulation of IFT-B proteins in a novel
            cytoplasmic compartment
  JOURNAL   Genes Cells 24 (11), 731-745 (2019)
   PUBMED   31554018
REFERENCE   4  (bases 1 to 2847)
  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   5  (bases 1 to 2847)
  AUTHORS   Katoh,Y., Terada,M., Nishijima,Y., Takei,R., Nozaki,S., Hamada,H.
            and Nakayama,K.
  TITLE     Overall Architecture of the Intraflagellar Transport (IFT)-B
            Complex Containing Cluap1/IFT38 as an Essential Component of the
            IFT-B Peripheral Subcomplex
  JOURNAL   J Biol Chem 291 (21), 10962-10975 (2016)
   PUBMED   26980730
  REMARK    GeneRIF: a ciliogenesis defect of Cluap1-deficient embryonic
            fibroblasts was rescued by exogenous expression of wild-type Cluap1
            but not by mutant Cluap1 lacking the binding ability to other IFT-B
            components
REFERENCE   6  (bases 1 to 2847)
  AUTHORS   Botilde,Y., Yoshiba,S., Shinohara,K., Hasegawa,T., Nishimura,H.,
            Shiratori,H. and Hamada,H.
  TITLE     Cluap1 localizes preferentially to the base and tip of cilia and is
            required for ciliogenesis in the mouse embryo
  JOURNAL   Dev Biol 381 (1), 203-212 (2013)
   PUBMED   23742838
  REMARK    GeneRIF: Cluap1 contributes to ciliogenesis by regulating the
            intraflagellar transport cycle at the base and tip of the cilium
REFERENCE   7  (bases 1 to 2847)
  AUTHORS   Pasek,R.C., Berbari,N.F., Lewis,W.R., Kesterson,R.A. and Yoder,B.K.
  TITLE     Mammalian Clusterin associated protein 1 is an evolutionarily
            conserved protein required for ciliogenesis
  JOURNAL   Cilia 1 (1), 20 (2012)
   PUBMED   23351563
  REMARK    Publication Status: Online-Only
REFERENCE   8  (bases 1 to 2847)
  AUTHORS   Follit,J.A., Xu,F., Keady,B.T. and Pazour,G.J.
  TITLE     Characterization of mouse IFT complex B
  JOURNAL   Cell Motil Cytoskeleton 66 (8), 457-468 (2009)
   PUBMED   19253336
REFERENCE   9  (bases 1 to 2847)
  AUTHORS   Marshall,W.F.
  TITLE     Human cilia proteome contains homolog of zebrafish polycystic
            kidney disease gene qilin
  JOURNAL   Curr Biol 14 (21), R913-R914 (2004)
   PUBMED   15530380
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC129021.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13422598.460828.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164143, SAMN02415137
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-167               AC129021.4         38464-38630         c
            168-279             AC129021.4         36055-36166         c
            280-364             AC129021.4         34248-34332         c
            365-544             AC129021.4         32015-32194         c
            545-640             AC129021.4         29696-29791         c
            641-724             AC129021.4         28053-28136         c
            725-858             AC129021.4         23644-23777         c
            859-1000            AC129021.4         18986-19127         c
            1001-1073           AC129021.4         17705-17777         c
            1074-1181           AC129021.4         13803-13910         c
            1182-1259           AC129021.4         10254-10331         c
            1260-1315           AC129021.4         10003-10058         c
            1316-2847           AC129021.4         5318-6849           c
FEATURES             Location/Qualifiers
     source          1..2847
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 2.3 cM"
     gene            1..2847
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="clusterin associated protein 1"
                     /db_xref="GeneID:76779"
                     /db_xref="MGI:MGI:1924029"
     exon            1..167
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             146..1465
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="isoform 2 is encoded by transcript variant 2"
                     /codon_start=1
                     /product="clusterin-associated protein 1 isoform 2"
                     /protein_id="NP_001405947.1"
                     /db_xref="GeneID:76779"
                     /db_xref="MGI:MGI:1924029"
                     /translation="MSFRDLRNFTEMMRALGYPRHISMENFRTPNFGLVSEVLLWLVK
                     RYEPQTDIPSDIETEQDRVFFIKAIAQFMATKAHIKLNTKKLYQADGYAVKELLKITS
                     VLYNAMKTKGMEGSNVGEEDISKFKFDLGSKIADLKAARQLASEITAKGASLYDLLGK
                     EVELRELRTEAIARPLEINETEKVMRIAIKDLLAQVQKTKDLLNNVASDEANLEAKIE
                     KRKLELERNRKRLQTLQSVRPAFMDEYEKVEEDLQKQYDVYLEKFRNLAYLEQQLEDH
                     HRMEQERFEEAENTLRLMQNKLKEEEKRLLKSGSNDDSDIDIQEDDESDSELEDRRMS
                     KPRTAMEVLMQEVQSSSMVMHSYSPSTLDAEARSRVQGRPSKRIVGAMQGGDSDEDED
                     SEDSEIDMEDDEEDDDDLEDESIALSPAKPSRRIRKPEPLDESDNDF"
     exon            168..279
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            280..364
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            365..544
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            545..640
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            641..724
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            725..858
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            859..1000
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1001..1073
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1074..1181
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1182..1259
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1260..1315
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1316..2847
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1654..1659
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="hexamer: AAGAAA"
     regulatory      1674..1679
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="hexamer: AATACA"
     polyA_site      1692
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
     polyA_site      1695
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="major polyA site"
     regulatory      2827..2832
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      2847
                     /gene="Cluap1"
                     /gene_synonym="2310030D15Rik; 2610111M03Rik"
ORIGIN      
        1 ctcttcgctt cctgtcctgt ttggcctggt ccgcacgctg tccaaggcct ctgagcgttg
       61 ctatagagac cggagagcgc tgggcctgcg aactctacag agacgggcag cggcgcccca
      121 gtggactctt ggggaccaga gcgccatgtc tttccgcgac ctccgcaatt tcaccgagat
      181 gatgagagcc ttggggtacc cacgccatat ttctatggag aatttccgca cacccaactt
      241 tgggcttgtc tctgaagtgc ttctgtggct tgtgaaaagg tatgagccgc agactgacat
      301 cccttctgac attgagactg aacaagacag agttttcttc attaaggcaa ttgcccagtt
      361 catggccaca aaggcacata taaaactcaa taccaagaag ctctatcaag ctgacgggta
      421 tgcagtgaaa gagctgctga agatcacatc tgttctctat aatgcaatga agaccaaagg
      481 gatggagggc tccaatgtag gagaggaaga catcagcaaa ttcaagtttg atctcggctc
      541 caagattgca gatttgaaag cagccagaca gcttgcgtct gaaatcactg ccaaaggagc
      601 ctctctgtat gacttgctgg gcaaagaggt tgagctgagg gaactgagga cagaagccat
      661 tgctagacct ctagagatca atgagactga aaaggtgatg aggattgcaa tcaaagatct
      721 tttggcccag gttcagaaga ctaaagacct gcttaataat gtggcctctg atgaagcaaa
      781 cttagaagcc aaaattgaaa agagaaaatt agaactggaa agaaatcgga agcgactgca
      841 gaccctgcag agtgtcaggc cggcctttat ggatgaatat gagaaggttg aggaagacct
      901 gcagaagcag tatgacgtct atctagagaa gttccggaac ctggcttacc tggagcagca
      961 gcttgaggat caccacagga tggagcagga gaggtttgaa gaagctgaaa atactctccg
     1021 tctgatgcaa aataagttaa aggaagaaga gaagcgactg ctcaagagtg gaagcaatga
     1081 tgactcagac atagacatcc aagaggatga tgaatcagac agcgagttgg aggacagacg
     1141 gatgtctaag cctcggacag cgatggaggt gctcatgcaa gaagtgcaga gctccagcat
     1201 ggtgatgcac agctatagtc ccagcactct agatgctgag gcaagatcaa gagttcaagg
     1261 aaggcccagc aaacggatcg tgggtgcaat gcaaggtgga gactcggatg aagacgaaga
     1321 ctcggaggac agtgaaattg acatggaaga tgatgaagaa gatgatgacg atttggaaga
     1381 tgaaagcatt gctctctcac cagctaagcc cagtcgaagg atccgtaaac cggagccctt
     1441 ggatgaaagt gacaatgact tctgaccttg ccaaggggcc caggcagatt aagagcctca
     1501 gatgtatagg tacacaggga ctcggcaggc tggaaaggta acatgtgttt tgttcactac
     1561 accatctggg cttaacccca acaaagatgt tcttttgtct atctcctaac acttgggatc
     1621 cccatacctg tgttctaagt cattcaaatc tacaagaaaa tcctttgagg agaaatacag
     1681 actgatacca tataagtctt ggctgctatt attatttttt tttttttaaa gatttattta
     1741 tttatttatt tattatatgt aagtacactg tagctgtcct cagacactcc agaagaggga
     1801 gtcagatctc gttatggatg gttgcgagcc aacatgtggt tgctgggatt tgaactcctg
     1861 accttcggaa gaacagttgg gtgctcttac ccactgagcc atctcaccag ccctattatt
     1921 attaaataag ttttccttga tgatcaggtc acaggctgat catcaaggct ccagattatg
     1981 actcttttgt tttctctcag aggaccagtg tccttctggg aggcagattc acttcaaatt
     2041 acatgccacc atcatatagt tccccagcct ggctccctca acaagtgtag ctccaacttc
     2101 tactgctacc tactcatgct agcaatcatg tgtgcttgtg ctaggaggca tgtatgtgtg
     2161 aaggccaaag gacaagcact gtacttgttc ctcaggagct gtccaccttt tggagggtgt
     2221 agggatggat cttttactag ggcctgggag ctcatcgatt atccgagact gactagacaa
     2281 tcggctcgtc ttatctcccg cttcccaggg attacaagcg cacactaagg gcttggggga
     2341 ctgcactcag cccctcatgc ttgcatgaca gactggtatc agctgaatta tatcctcagc
     2401 ccaactggca tttcttattt catttatgag acagggccta gtctagaact cctatgcaga
     2461 ccaggctggc cttgaactca cagaggttca tttgtgagtt cagaggctcc cctgcccatg
     2521 catgtagaag tcagaggagg acatcaggtg tcttcccaat tactttctgc cttagtgctt
     2581 gaaacagtca ctccctgaac tgaagcttgc tgtttttcat ctaggctgga tagccaacaa
     2641 gctcttggta cacagtgctg gagttaaagg tatgtgtagc cacgcccata tttttgctgt
     2701 ttgttattgt tttgtttttg agtcagggtc ttactgtgta cccctggttg atttggaact
     2761 tcctatgcag atcaggctgg ctttgaactc gaagagatgt gcatcactct gccttacact
     2821 gctgtgatta aaggcgcacg catccca
//
