LOCUS       NM_009869               3424 bp    mRNA    linear   ROD 01-MAY-2024
DEFINITION  Mus musculus cadherin 9 (Cdh9), mRNA.
ACCESSION   NM_009869 XM_001474146 XM_006520019 XM_986179
VERSION     NM_009869.2
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 3424)
  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 3424)
  AUTHORS   Wu,N., Wang,Y., Jia,J.Y., Pan,Y.H. and Yuan,X.B.
  TITLE     Association of CDH11 with Autism Spectrum Disorder Revealed by
            Matched-gene Co-expression Analysis and Mouse Behavioral Studies
  JOURNAL   Neurosci Bull 38 (1), 29-46 (2022)
   PUBMED   34523068
REFERENCE   3  (bases 1 to 3424)
  AUTHORS   Polanco,J., Reyes-Vigil,F., Weisberg,S.D., Dhimitruka,I. and
            Bruses,J.L.
  TITLE     Differential Spatiotemporal Expression of Type I and Type II
            Cadherins Associated With the Segmentation of the Central Nervous
            System and Formation of Brain Nuclei in the Developing Mouse
  JOURNAL   Front Mol Neurosci 14, 633719 (2021)
   PUBMED   33833667
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3424)
  AUTHORS   Vagnozzi,A.N., Garg,K., Dewitz,C., Moore,M.T., Cregg,J.M.,
            Jeannotte,L., Zampieri,N., Landmesser,L.T. and Philippidou,P.
  TITLE     Phrenic-specific transcriptional programs shape respiratory motor
            output
  JOURNAL   Elife 9, e52859 (2020)
   PUBMED   31944180
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3424)
  AUTHORS   Wang,C., Pan,Y.H., Wang,Y., Blatt,G. and Yuan,X.B.
  TITLE     Segregated expressions of autism risk genes Cdh11 and Cdh9 in
            autism-relevant regions of developing cerebellum
  JOURNAL   Mol Brain 12 (1), 40 (2019)
   PUBMED   31046797
  REMARK    GeneRIF: mRNA expression profiles of two autism spectrum
            disorder-associated cadherins, Cdh9 and Cdh11, in the developing
            cerebellum, were examined.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3424)
  AUTHORS   Oeschger,F.M., Wang,W.Z., Lee,S., Garcia-Moreno,F., Goffinet,A.M.,
            Arbones,M.L., Rakic,S. and Molnar,Z.
  TITLE     Gene expression analysis of the embryonic subplate
  JOURNAL   Cereb Cortex 22 (6), 1343-1359 (2012)
   PUBMED   21862448
REFERENCE   7  (bases 1 to 3424)
  AUTHORS   Williams,M.E., Wilke,S.A., Daggett,A., Davis,E., Otto,S., Ravi,D.,
            Ripley,B., Bushong,E.A., Ellisman,M.H., Klein,G. and Ghosh,A.
  TITLE     Cadherin-9 regulates synapse-specific differentiation in the
            developing hippocampus
  JOURNAL   Neuron 71 (4), 640-655 (2011)
   PUBMED   21867881
  REMARK    GeneRIF: These observations indicate that cadherin-9
            bidirectionally regulates DG-CA3 synapse development and highlight
            the critical role of differentially expressed molecular cues in
            establishing specific connections in the mammalian brain.
REFERENCE   8  (bases 1 to 3424)
  AUTHORS   Machold,R., Klein,C. and Fishell,G.
  TITLE     Genes expressed in Atoh1 neuronal lineages arising from the
            r1/isthmus rhombic lip
  JOURNAL   Gene Expr Patterns 11 (5-6), 349-359 (2011)
   PUBMED   21440680
REFERENCE   9  (bases 1 to 3424)
  AUTHORS   Munro,S.B. and Blaschuk,O.W.
  TITLE     A comprehensive survey of the cadherins expressed in the testes of
            fetal, immature, and adult mice utilizing the polymerase chain
            reaction
  JOURNAL   Biol Reprod 55 (4), 822-827 (1996)
   PUBMED   8879495
REFERENCE   10 (bases 1 to 3424)
  AUTHORS   Munro,S.B., Duclos,A.J., Jackson,A.R., Baines,M.G. and
            Blaschuk,O.W.
  TITLE     Characterization of cadherins expressed by murine thymocytes
  JOURNAL   Cell Immunol 169 (2), 309-312 (1996)
   PUBMED   8620560
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC123645.7 and AC116724.13.
            
            On or before Feb 13, 2019 this sequence version replaced
            XM_006520019.3, NM_009869.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: ERR3363658.328462.1,
                                           SRR1660821.159289.1 [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
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-121               AC123645.7         24714-24834         c
            122-386             AC116724.13        55046-55310
            387-681             AC116724.13        100144-100438
            682-801             AC116724.13        105329-105448
            802-969             AC116724.13        105927-106094
            970-1157            AC116724.13        107872-108059
            1158-1411           AC116724.13        109010-109263
            1412-1548           AC116724.13        125471-125607
            1549-1670           AC116724.13        126066-126187
            1671-1788           AC116724.13        127277-127394
            1789-2040           AC116724.13        127759-128010
            2041-3424           AC116724.13        132740-134123
FEATURES             Location/Qualifiers
     source          1..3424
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="15"
                     /map="15 7.91 cM"
     gene            1..3424
                     /gene="Cdh9"
                     /note="cadherin 9"
                     /db_xref="GeneID:12565"
                     /db_xref="MGI:MGI:107433"
     exon            1..121
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            122..386
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            387..681
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            682..801
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            802..969
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            970..1157
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            1158..1411
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            1412..1548
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            1549..1670
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            1671..1788
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            1789..2040
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     exon            2041..3424
                     /gene="Cdh9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3350..3355
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cdh9"
                     /note="hexamer: AATAAA"
     polyA_site      3380
                     /gene="Cdh9"
                     /note="major polyA site"
ORIGIN      
        1 gagatgcatg aagactcggc tggggagaca ctgtaaaagg gggaaaggaa gggatgagac
       61 agaagcaaca acagaatcaa ccctgctgag caaggctaac tgctttccat tgctaaacaa
      121 gactacacat tgaaactttc atccttctga aggtgaagat aatgaggact tacagttgtc
      181 ttcaactggt catctggact tgcattttcc atatggttga caacagcaca ttacaaggaa
      241 aggatagcag tcacttcctg agaaggatag tgaatctgaa aaaggatgag ggtaaaatgc
      301 tccatcgtgc caagcgtggc tggatgtgga atcagttctt cctcttagaa gagtatacag
      361 gtacagacac tcagtatgta ggaaagcttc acactgacca agataaagga gatggaaatt
      421 taaaatacat tttgacagga gatggagctg gcaatctgtt tgttatagat gaaaatacag
      481 gagatattca cgctgcaaag agactagaca gagaagaaaa atctctgtac attcttcgtg
      541 ccaaggctat agacagaaag accggacgac aagtggagcc agaatctgag tttatcatta
      601 aaatccatga tattaatgac aatgaaccaa aattcacgaa agacctgtac acagccagtg
      661 ttcctgaaat gtctggagtt ggtacgtctg ttatacaagt aactgccacc gatgcagatg
      721 atgctaacta tgggaacagt gctaaagtgg tctacagcat tctgcaaggg cagccatact
      781 tttcagtgga cccggaatca ggcataataa agactgcatt gccagacatg agcagagaaa
      841 acaaagagca gtaccaagtt gttattcagg ctaaggacat gggtggccag atgggaggcc
      901 tctctggcac caccacagtg aacatcaccc taacagatgt caacaacaac cctcctcggt
      961 tcccacagag cacttatcag tttaattctc tggagtcggc acctcttgga actcatcttg
     1021 gaaggataaa agccaatgac ccagacatgg gggagaacgc cgagctggaa tatagcattg
     1081 cagaaggaga aggatcagac atgtttgatg tgatcactga caaagataca caggaaggga
     1141 tcataactgt caaacagaat ttagattttg aaaagaaaat gttgtacact ttaagagtgg
     1201 atgcaagtaa tacccaccct gatcctcgat tcttacacct tggacctttc aaagactcag
     1261 ccatggttaa gatatctgtg gaagatgtag atgagccccc tgtgttcagt aagctctctt
     1321 acttgatgga agttgatgaa gatgtgaagg aggggagcat catcggacaa gtcacagcat
     1381 atgacccaga tgccatgaac aacataataa aatactctgt ggaccgccat actgatatgg
     1441 accgagtttt cagtattcac tcagaaaatg gttctatctt cactctgaaa cccctggatc
     1501 gggaatcatc cccttggcat aacatcacca ttacagccac agagataaat aacccaaaac
     1561 aaagtagcca aattcctgtc ttcatcagaa tccttgatat aaatgatcat gctccagaat
     1621 ttgccactta ctatgaaaca tttgtttgtg aaaatgcaaa gtctggccag ttgattcaaa
     1681 ctataagtgt catggacaaa gatgatcctc ctcgaggaca caagttcttc tttgagccag
     1741 tgccagaatt tcctctaaac ccaaacttca caattgtaga caataaagat aatacagcag
     1801 gaattgtaac tcgaaaagat gggtacagcc gcaacaaaat gaacacctac ctactgccgg
     1861 ttttaatctt cgacaatgat tatcctattc aaagcagcac tggcacactc acgatccgtg
     1921 tgtgcgcatg cgataacctg gggaacatgc agtcctgcaa tgcggaggcc ctgatgcttg
     1981 ctgcaggcct gagcacaggg gcgctcatcg ctattctcct ttgtgtcgtc atcctgctta
     2041 ctctaattgt actgtttgct gcattgaaga ggcaacggaa aaaggagcct ctgatcattt
     2101 caaaggatga cgtccgggac aatattgtga cctataatga cgaaggtggt ggagaggaag
     2161 acacacaggc ttttgacatc ggcacattaa ggaatccgga agcaagagaa gacagtaaac
     2221 ttagaagaga tgtcatgcct gaaactattt ttcagataag gaggacagta cccctctggg
     2281 aaaatattga cgtacaagat tttatacacc ggagactgaa agaaaacgac tcagacccaa
     2341 gtgcaccgcc ctacgactcc ctggccactt atgcctatga agggaatgat tctgttgcca
     2401 attctctcag ctccttagaa tctctcacag ctgattgcaa ccaggattat gattacctta
     2461 gcgactgggg acctcggttc aaaaaactcg cagaaatgta tgggggtaac gacagtgatc
     2521 tgaactgaat cctatatgac ttcatcaaca ttagtagaaa cagtatcttc aataccagat
     2581 tgagtggcct gtgttgtccc tttttggagg aaaattttaa aataacaact ccaaacaata
     2641 cataagtgtt gtcctagtaa gggtttgctt aatcagtaag tttctgtgaa tgagtatgaa
     2701 tgatatagat tttaaaacag taataataac ctgttcaccc tctttgccta ataagcttgg
     2761 aaaaatatat cacattaata atcaataaaa attcttgaaa ggctttttgt gccttgtctt
     2821 agtataggaa ctttataaat gttttcttaa ctgattgtca gtcacatata ctatgaaacg
     2881 aaacattgtg caactgcttt gtaaattaat atgaaagaaa atatacctaa tgaaatagga
     2941 gtgactatta ctgccatatt tatttagtgg aaagatgtct ttgtgttgat tcactcatat
     3001 ttttataaat gtatatttat atttttgtat ttttatgaaa taaactaatg tttataaaaa
     3061 taaatttcat tttatttact tcctcggagc agttgatctc acgacagaag tgtttttatc
     3121 tctctgagag taaaacactc tctactcagg gaaaagcagc cgagcagtca ctgcataggt
     3181 cgccgatgta aagtgggata tatctaggga tgagatttgg tatgaattgt tgttttctct
     3241 gtttcaatat ttaagtgtgg agaaatgttt attgaactac ttatgcctac tcatggatag
     3301 actatgagat caatttgaaa tataaattat catatatgtg gttgtggaca ataaactaag
     3361 tttttgcaag atttatcaaa caatgtattg tatttgaata aacggagtat aacacataca
     3421 tgtt
//
