LOCUS       NM_011041               4334 bp    mRNA    linear   ROD 25-FEB-2025
DEFINITION  Mus musculus paired box 9 (Pax9), mRNA.
ACCESSION   NM_011041
VERSION     NM_011041.3
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 4334)
  AUTHORS   Jasmine, Baraiya,D.H., Kavya,T.T., Mandal,A., Chakraborty,S.,
            Sathish,N., Francis,C.M.R. and Binoy Joseph,D.
  TITLE     Epithelial and mesenchymal compartments of the developing bladder
            and urethra display spatially distinct gene expression patterns
  JOURNAL   Dev Biol 520, 155-170 (2025)
   PUBMED   39798644
REFERENCE   2  (bases 1 to 4334)
  AUTHORS   Ushiki,A., Sheng,R.R., Zhang,Y., Zhao,J., Nobuhara,M., Murray,E.,
            Ruan,X., Rios,J.J., Wise,C.A. and Ahituv,N.
  TITLE     Deletion of Pax1 scoliosis-associated regulatory elements leads to
            a female-biased tail abnormality
  JOURNAL   Cell Rep 43 (3), 113907 (2024)
   PUBMED   38461417
REFERENCE   3  (bases 1 to 4334)
  AUTHORS   Pappas,M.P., Kawakami,H., Corcoran,D., Chen,K.Q., Scott,E.P.,
            Wong,J., Gearhart,M.D., Nishinakamura,R., Nakagawa,Y. and
            Kawakami,Y.
  TITLE     Sall4 regulates posterior trunk mesoderm development by promoting
            mesodermal gene expression and repressing neural genes in the
            mesoderm
  JOURNAL   Development 151 (5) (2024)
   PUBMED   38345319
REFERENCE   4  (bases 1 to 4334)
  AUTHORS   Wang,S., Matsumoto,K., Mehlferber,M.M., Zhang,G., Aronova,M.A. and
            Yamada,K.M.
  TITLE     Microtubule-dependent apical polarization of basement membrane
            matrix mRNAs in mouse epithelial cells
  JOURNAL   Cells Dev 177, 203898 (2024)
   PUBMED   38103869
REFERENCE   5  (bases 1 to 4334)
  AUTHORS   Guertin,T.M., Palaria,A., Mager,J., Sandell,L.L., Trainor,P.A. and
            Tremblay,K.D.
  TITLE     Deciphering the role of retinoic acid in hepatic patterning and
            induction in the mouse
  JOURNAL   Dev Biol 491, 31-42 (2022)
   PUBMED   36028102
REFERENCE   6  (bases 1 to 4334)
  AUTHORS   Neubuser,A., Koseki,H. and Balling,R.
  TITLE     Characterization and developmental expression of Pax9, a
            paired-box-containing gene related to Pax1
  JOURNAL   Dev Biol 170 (2), 701-716 (1995)
   PUBMED   7649395
REFERENCE   7  (bases 1 to 4334)
  AUTHORS   Parr,B.A. and McMahon,A.P.
  TITLE     Dorsalizing signal Wnt-7a required for normal polarity of D-V and
            A-P axes of mouse limb
  JOURNAL   Nature 374 (6520), 350-353 (1995)
   PUBMED   7885472
REFERENCE   8  (bases 1 to 4334)
  AUTHORS   Watanabe,T., Tarttelin,E., Neubuser,A., Kimura,M. and Solter,D.
  TITLE     Fine genetic mapping defines the genetic order of Pax9, Tcf3a, and
            Acrodysplasia (Adp)
  JOURNAL   Mamm Genome 5 (12), 768-770 (1994)
   PUBMED   7894157
REFERENCE   9  (bases 1 to 4334)
  AUTHORS   Mansouri,A., Stoykova,A. and Gruss,P.
  TITLE     Pax genes in development
  JOURNAL   J Cell Sci Suppl 18, 35-42 (1994)
   PUBMED   7883790
  REMARK    Review article
REFERENCE   10 (bases 1 to 4334)
  AUTHORS   Stapleton,P., Weith,A., Urbanek,P., Kozmik,Z. and Busslinger,M.
  TITLE     Chromosomal localization of seven PAX genes and cloning of a novel
            family member, PAX-9
  JOURNAL   Nat Genet 3 (4), 292-298 (1993)
   PUBMED   7981748
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC160393.2 and AK132404.1.
            
            On Sep 18, 2015 this sequence version replaced NM_011041.2.
            
            Summary: This gene is a member of the paired box (PAX) family of
            transcription factors. Members of this gene family typically
            contain a paired box domain, an octapeptide, and a paired-type
            homeodomain. These genes play critical roles during fetal
            development and cancer growth. Mice lacking this gene exhibit
            impaired development of organs, musculature and the skeleton,
            including absent and abnormally developed teeth, and neonatal
            lethality. Mutations in the human gene are associated with
            selective tooth agenesis-3. [provided by RefSeq, Sep 2015].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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 :: AK132404.1, X84000.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849376
                                           [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
            1-168               AC160393.2         18672-18839         c
            169-3062            AK132404.1         2-2895
            3063-3063           AC160393.2         2759-2759           c
            3064-4334           AK132404.1         2896-4166
FEATURES             Location/Qualifiers
     source          1..4334
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 24.53 cM"
     gene            1..4334
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /note="paired box 9"
                     /db_xref="GeneID:18511"
                     /db_xref="MGI:MGI:97493"
     exon            1..394
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /inference="alignment:Splign:2.1.0"
     CDS             391..1419
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /note="paired box gene 9"
                     /codon_start=1
                     /product="paired box protein Pax-9"
                     /protein_id="NP_035171.1"
                     /db_xref="CCDS:CCDS25924.1"
                     /db_xref="GeneID:18511"
                     /db_xref="MGI:MGI:97493"
                     /translation="MEPAFGEVNQLGGVFVNGRPLPNAIRLRIVELAQLGIRPCDISR
                     QLRVSHGCVSKILARYNETGSILPGAIGGSKPRVTTPTVVKHIRTYKQRDPGIFAWEI
                     RDRLLADGVCDKYNVPSVSSISRILRNKIGNLAQQGHYDSYKQHQPAPQPALPYNHIY
                     SYPSPITAAAAKVPTPPGVPAIPGSVALPRTWPSSHSVTDILGIRSITDQGVSDSSPY
                     HSPKVEEWSSLGRNNFPAAAPHAVNGLEKGALEQEAKYGQAPNGLPAVSSFVSASSMA
                     PYPTPAQVSPYMTYSAAPSGYVAGHGWQHAGSTPLSPHNCDIPASLAFKGMQAAREGS
                     HSVTASAL"
     exon            395..1021
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /inference="alignment:Splign:2.1.0"
     exon            1022..1164
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /inference="alignment:Splign:2.1.0"
     exon            1165..4334
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4311..4316
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
                     /note="hexamer: AATAAA"
     polyA_site      4333
                     /gene="Pax9"
                     /gene_synonym="Pax-9"
ORIGIN      
        1 tcacccaggt gcggagccag ccagaaacag acggcggaag gagtttcccg gactgagctg
       61 tcactcaccg gcctgcacca attacaacgc agattgctcg cgggcccacc tcttttgggg
      121 tgtgtcacaa gtgagtgata gactgagccg cccggccctg ctcagcccag cccacgttgc
      181 tgcttagatt gaaatgcaga actcaagcct ctttcagccc ggcacagact tccttttact
      241 ctttcctttg gcactcttgt cgcctcctcc cgggaagaag ccaaggcacc ctcggcttgg
      301 agcagcgaca ggccggctca gtgagaacaa gaaaaaagtt tctttctggg agtgcggaac
      361 tggggccggg ttggtgtact gctcagagca atggagccag ccttcgggga ggtgaaccag
      421 ctgggaggag tgttcgtgaa cggaaggccg ctgcccaacg ccattcggct tcgcatcgtg
      481 gaattagccc aactgggcat ccgaccttgt gacatcagcc gccagctacg ggtctcgcac
      541 ggctgcgtca gcaagatcct ggcgcgctac aacgagaccg gttcgatttt gccgggagct
      601 attgggggga gcaagccccg ggtcaccacc cctactgtgg tgaaacacat ccggacttac
      661 aagcagaggg acccaggcat cttcgcttgg gagatccggg accgcctgct ggcggatggc
      721 gtgtgcgaca agtacaacgt gccctcggtg agttccatca gccgtattct gcgcaacaag
      781 atcggcaact tggcccagca gggtcattac gactcataca agcagcacca gcccgcgccg
      841 cagcccgcgc tgccctacaa ccacatttac tcatatccca gtcccatcac ggcggcagca
      901 gctaaggtgc ctacaccacc tggggtgccg gccatccccg gatcggtggc cttgccgcgc
      961 acctggccct cctctcactc cgtcacggac attctgggca tccgctccat caccgaccaa
     1021 ggagtgagcg acagctcccc ctaccacagc cccaaggtgg aggagtggag cagcctgggc
     1081 cgcaacaact tccctgccgc cgccccgcac gcagtgaatg gattggagaa gggagccttg
     1141 gagcaggaag ccaagtacgg ccaggcaccg aatggtctcc cagctgtgag cagtttcgtc
     1201 tcagcatcca gcatggctcc ttaccctaca ccagcccaag tgtcacccta catgacctac
     1261 agtgctgctc cttctggtta tgtggctgga catgggtggc aacatgccgg cagcacccca
     1321 ctgtcccccc acaactgtga cattcccgca tcgctggctt tcaagggaat gcaggcagcc
     1381 agggaaggca gccattctgt gaccgcttct gcactctgat gggagcgtcc actccggcag
     1441 ccccacttcc ggtcttccct cctagcacat cctccctctc gtcacacccc acccctccag
     1501 tggtccagct ttactgcctc aagagctggc ttcatggatt cataatcttt gtgctgatga
     1561 cacttaaata tttttttttt ttgctgtaac ttcccttttc caggaaacct ggcataactt
     1621 taggatttaa aaacaaaagc aactctaaag gtggaatgag gcatttgtgt tgcccgcaca
     1681 ctgttttaac acagagaaga aacctatccc cctcaaaggg cttatggaac attgtaggtc
     1741 tgtctttggt aaaaccacac ctgtatattt attctaaatc aacctgaact ttcgaaacgt
     1801 gcaattgttg agattttgca aaatcaataa aggaaaacag atgtagaaaa aaaaaaaatt
     1861 aagtggtatg ctctaatcaa ataaggtgac caaaaaagct ttaattcacc attaggaaac
     1921 taatcaaaaa ctgacttgtg tgatcttttg tttcttttta agagatgatg tattttgctg
     1981 agaaatatgt atagaactca agcaatattg gaattttgtg cctttggttg ttttgacttg
     2041 gttcctaata cagtaatgtt tgtatttcta tgaccttgta aatatggatg tggatgtctt
     2101 cgttccacgg ggtacccctc caccaacacc aacacctctc ttttatcttt cttcctttgc
     2161 aaaggtgact tgctggtgat gtatttctct gtttggtggt gggccacttg ggctcctgga
     2221 cctggacttg ccccaggtcg tgtgtattca gtagaggctt cagcatctca tgaaggatac
     2281 tttttttttt cctatagcag aggactcaaa acatagataa aacaaatcag gttttagttt
     2341 gtatcccagt caaacaacac atatgtcaag cacaggacaa caaaaaggct gtaacatacc
     2401 tgtactgcaa tcctctaaca gaagtcacta ggaacacatc taatgtgaaa tgggtttttg
     2461 tctttttttt tttctttctt tcttgcaaca acacttaaaa tgaactttat gtgctagaaa
     2521 accactgtga aatgaaattg tactgttgtt gttggcttac ctgtgtgttc agcaatctca
     2581 gccccacatt tgtctgataa cttaaaagga gatggagaac tcttctctaa tgaatgtagt
     2641 aacaatggct tgctgtgaag tttacagtgc gtactgaagc atgtttcgcg agtaggtcaa
     2701 ttggtgttgg catcagaaat acaaatgcta tttaatttgt tagcaaattc tttttttttt
     2761 aaatggaatt acagaacaga gattagctgc taaacccttc tataccaatt tgatttttat
     2821 gttaatgtta tgaacagagc tataggacat gcaatgtgtg tgaccatgtg attatatgtt
     2881 ttattttata atagttcatt ttcttgggca agattctaca gtctgcattc cttctgctgc
     2941 ttggcaaaat agggttaaaa tttactttta gaatattggc accattcatc tattgagata
     3001 ttaatgtact gttttggtat taattccact caataactaa acaggtatgg attttttttt
     3061 tttgtatttg ttttttgttt ttcgagacac aggctttctc tgtgtagtca tggctgtcct
     3121 gaaactcact ctgtagacaa ggctggcctc gaactcagaa atctgcctgc ctctgcctcc
     3181 cgagtgctgg gattaaaggc atgcgccacc actgcccaac taggtgatat gcagctgtat
     3241 ttaaggaact aggtgccccc cacatcccct cccccagccc cccccccccc gaaacagcgt
     3301 agagagttgt cttatgaaat ttcttataga gagcttcatg ctgcatttct ttctaaagca
     3361 accaacactc gttgctacaa agaggattat aactttagga gaagagtaag cagaaggagc
     3421 cagagctgat caactctcag ggccatagaa gcccttcgat gttgtaaaac tccccactga
     3481 caattcgcgt tccctcccgc gtggtaagaa gacaggctgt aaccaaatgg cattaagatc
     3541 caatccaata ttttggtggg gactgctatc cagagaatct gactgaaggc acagaattat
     3601 tctatatcta ataggttttt aggtgactat ttgggatatt gcaaaatagt aattgctttt
     3661 atggaaacat aactgataac gttattttcc ttatctaagt taagaggtct tattgttatt
     3721 tatatttttc tggtttttgt attttaagaa attaatattg acggtgtcag agttttcttt
     3781 ttcattctcg ctcctctctc caggtctcta attgataatg gtaaatccac agggaacaat
     3841 tttaaaagac aatggaaaac cgtgttggca attcatagcc acttctgact gaagccacat
     3901 taacaaccaa gaacaagaac acagtgaggt agggccggct agatctgcaa gcctgttact
     3961 gttaacacca gcctcctcca gacactagct cctcctcaga ggggaacatt ttctaagttg
     4021 gcacatgcac tcttcataat tccttttttg ccctgttgtg tgcctttagc tctcttgcag
     4081 aggactctag tgtgtatcac cttccaggac agaaaacagc catgcaacac agacccactt
     4141 gttctgctcc tggctctctg ttctttaatg acccatatat tgaatattgg gctgaaatac
     4201 aaatgaaaaa gaaaaaaaat catgttggga aagatgtaca gcagaaggct ctgtatgtat
     4261 atagcgtatg tcaaaagcct tttattttta tacttcagat gctctaagtt aataaataca
     4321 aataattacc atgt
//
