LOCUS       NM_001039539            3933 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus paired box 9 (Pax9), mRNA.
ACCESSION   NM_001039539 XM_347075
VERSION     NM_001039539.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3933)
  AUTHORS   Nakatomi,M., Wang,X.P., Key,D., Lund,J.J., Turbe-Doan,A., Kist,R.,
            Aw,A., Chen,Y., Maas,R.L. and Peters,H.
  TITLE     Genetic interactions between Pax9 and Msx1 regulate lip development
            and several stages of tooth morphogenesis
  JOURNAL   Dev Biol 340 (2), 438-449 (2010)
   PUBMED   20123092
REFERENCE   2  (bases 1 to 3933)
  AUTHORS   Suzuki,M., Katagiri,N., Ueda,M. and Tanaka,S.
  TITLE     Functional analysis of Nkx2.1 and Pax9 for calcitonin gene
            transcription
  JOURNAL   Gen Comp Endocrinol 152 (2-3), 259-266 (2007)
   PUBMED   17412341
  REMARK    GeneRIF: calcitonin gene expression could be directly activated by
            Nkx2.1, whereas Pax9 is not involved in transcription from the 2kbp
            calcitonin promoter
REFERENCE   3  (bases 1 to 3933)
  AUTHORS   Sasaki,Y., O'Kane,S., Dixon,J., Dixon,M.J. and Ferguson,M.W.
  TITLE     Temporal and spatial expression of Pax9 and Sonic hedgehog during
            development of normal mouse palates and cleft palates in TGF-beta3
            null embryos
  JOURNAL   Arch Oral Biol 52 (3), 260-267 (2007)
   PUBMED   17097601
REFERENCE   4  (bases 1 to 3933)
  AUTHORS   Rodrigo,I., Bovolenta,P., Mankoo,B.S. and Imai,K.
  TITLE     Meox homeodomain proteins are required for Bapx1 expression in the
            sclerotome and activate its transcription by direct binding to its
            promoter
  JOURNAL   Mol Cell Biol 24 (7), 2757-2766 (2004)
   PUBMED   15024065
REFERENCE   5  (bases 1 to 3933)
  AUTHORS   Mensah,J.K., Ogawa,T., Kapadia,H., Cavender,A.C. and D'Souza,R.N.
  TITLE     Functional analysis of a mutation in PAX9 associated with familial
            tooth agenesis in humans
  JOURNAL   J Biol Chem 279 (7), 5924-5933 (2004)
   PUBMED   14607846
REFERENCE   6  (bases 1 to 3933)
  AUTHORS   Tan,K., Shaw,A.L., Madsen,B., Jensen,K., Taylor-Papadimitriou,J.
            and Freemont,P.S.
  TITLE     Human PLU-1 Has transcriptional repression properties and interacts
            with the developmental transcription factors BF-1 and PAX9
  JOURNAL   J Biol Chem 278 (23), 20507-20513 (2003)
   PUBMED   12657635
REFERENCE   7  (bases 1 to 3933)
  AUTHORS   Hetzer-Egger,C., Schorpp,M., Haas-Assenbaum,A., Balling,R.,
            Peters,H. and Boehm,T.
  TITLE     Thymopoiesis requires Pax9 function in thymic epithelial cells
  JOURNAL   Eur J Immunol 32 (4), 1175-1181 (2002)
   PUBMED   11932925
REFERENCE   8  (bases 1 to 3933)
  AUTHORS   Neubuser,A., Peters,H., Balling,R. and Martin,G.R.
  TITLE     Antagonistic interactions between FGF and BMP signaling pathways: a
            mechanism for positioning the sites of tooth formation
  JOURNAL   Cell 90 (2), 247-255 (1997)
   PUBMED   9244299
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000006.1.
            
            On Nov 27, 2020 this sequence version replaced NM_001039539.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB248957.1, SRR26643292.26051.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN06621351, SAMN09345238
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-177               JAXUCZ010000006.1  79921801-79921977
            178-804             JAXUCZ010000006.1  79922717-79923343
            805-947             JAXUCZ010000006.1  79926192-79926334
            948-3933            JAXUCZ010000006.1  79935564-79938549
FEATURES             Location/Qualifiers
     source          1..3933
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="6"
                     /map="6q23"
     gene            1..3933
                     /gene="Pax9"
                     /note="paired box 9"
                     /db_xref="GeneID:362741"
                     /db_xref="RGD:1560838"
     exon            1..177
                     /gene="Pax9"
                     /inference="alignment:Splign:2.1.0"
     CDS             174..1202
                     /gene="Pax9"
                     /note="paired box gene 9"
                     /codon_start=1
                     /product="paired box protein Pax-9"
                     /protein_id="NP_001034628.1"
                     /db_xref="GeneID:362741"
                     /db_xref="RGD:1560838"
                     /translation="MEPAFGEVNQLGGVFVNGRPLPNAIRLRIVELAQLGIRPCDISR
                     QLRVSHGCVSKILARYNETGSILPGAIGGSKPRVTTPTVVKHIRTYKQRDPGIFAWEI
                     RDRLLADGVCDKYNVPSVSSISRILRNKIGNLAQQGHYDSYKQHQPAPQPALPYNHIY
                     SYPSPITAAAAKVPTPPGVPAIPGSVALPRTWPSSHSVTDILGIRSITDQGVSDSSPY
                     HSPKVEEWSSLGRNNFSAAAPHAVNGLEKGALEQEAKYGQAPNGLPAVSSFVSASSMA
                     PYPTPAQVSPYMTYSAAPSGYVAGHGWQHAGSTPLSPHNCDIPTSLAFKGMQAAREGS
                     HSVAASAL"
     exon            178..804
                     /gene="Pax9"
                     /inference="alignment:Splign:2.1.0"
     exon            805..947
                     /gene="Pax9"
                     /inference="alignment:Splign:2.1.0"
     exon            948..3933
                     /gene="Pax9"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ccgggcacag acttcctttt actctttcct ttggcactct tgtcgcctcc tcccggggag
       61 aagccaaggc acccgcggct tggagcagcg acaggccggc ccagtgagag caaggaaaaa
      121 gtttctttct gggagtgcgg aactggggcc gggttggtgt actgctcgga gcaatggagc
      181 cagccttcgg ggaggtgaac cagctgggag gagtgttcgt gaacggaagg ccgctgccca
      241 acgccattcg gcttcgcatc gtggaattag cccaactggg catccgacct tgtgacatca
      301 gccgacagct acgggtctcg cacggctgcg tcagcaagat cttggcgcgc tacaacgaga
      361 ccggttcgat tttgccggga gctatcgggg gaagcaagcc ccgggtcacc acccctactg
      421 tagtgaaaca catccggact tacaagcaga gggacccagg catctttgct tgggagatcc
      481 gggaccgcct gctggcggat ggcgtgtgcg acaagtacaa cgtaccctct gtgagttcca
      541 tcagccggat tctgcgcaac aagatcggca acttggccca gcagggtcac tacgactcct
      601 ataagcagca ccagccagcg ccgcagcccg cgctgcccta caaccacatc tactcctacc
      661 ccagtcccat cacggcggca gctgctaagg tgcccacacc acctggggtg ccggccatcc
      721 caggatccgt ggccctgccg cgcacctggc cctcctctca ctccgtcacc gacatcctgg
      781 gcatccgttc catcaccgac caaggagtga gcgacagctc cccctaccac agccccaagg
      841 tggaggagtg gagcagcctg ggccgcaaca acttctctgc tgcagccccg cacgcagtga
      901 atggattgga gaagggagcc ttggagcaag aagccaagta cggccaggca ccgaacggtc
      961 tcccagctgt gagcagtttt gtatcagcat ccagcatggc tccttacccc acaccagccc
     1021 aagtgtcacc ctacatgacc tacagtgctg ctccttctgg ttacgttgct ggacatgggt
     1081 ggcaacatgc tggcagcact ccactgtccc cccacaactg tgacattccc acatcactgg
     1141 ctttcaaggg aatgcaggca gccagagaag gtagccattc tgtcgcagcc tctgcactct
     1201 gatgggagct tccacttcca gctgtgtcac tctggtctcc cctttcagca catcctcccc
     1261 ctcctcacat cccacctctc cagtggtcca gctttcctgc ctcaagagct ggctttatgg
     1321 attcataatt tttgtgctga tgacacttaa atatttcttg ctgtcacttc cccttttcca
     1381 ggaaatctgg cctaacttta ggatttaaaa acaaaagcaa ctctaaagat tgaacgggac
     1441 ttgtgcgttt gcccgcacac tgttttaaca cagtgaggaa acctactccc ctcaaagggt
     1501 ttatggaact ttgtggatct gtctttggta aaaccacaca tgtatattta ttctaaatca
     1561 acctgaactt ttgaaacgtg caattgtcga gattttgcaa aatcaataaa gggaaacaga
     1621 tgtagaaaaa aaaataagtt atgtgatagc ctctaatcaa ataaggtgac caaataagcc
     1681 ttaattcacc attaagaaac caatcaataa ttgacgtgtg tgatcttttg tttcttttta
     1741 agagatgatg tatttcgttg aaaaaatatg tatagaactc aaacaatatt ggacttttgc
     1801 tccttttgtt gtttgacttg gtccctaata cagtaatgtt tgtatttcta tgagcttgta
     1861 aatatggaag atgttgtctt cattccatgg ggtacccccc accagcacca acaccactta
     1921 tctttctttc ttggcaatgg tgactttcta gcgaggtatt tttctctgtt tggtggtggt
     1981 ggacttgccc tcaggttgtg tgtattcagt aaatgcttca gcgtctcatg aaggatactt
     2041 tctttctaca gcagaggact cagacacaga tcaaacaagc cagcttttag tttgtgtccc
     2101 agccaaacaa tactcatgtc aagcacagga caagaggctc taacatacct gtaccacaac
     2161 gctctaacgg aagtcactag aaacacgtct aatgtgaaat ggtttgttta ttttgttttg
     2221 ttttttgttt tttagttttg cttttttttt ttggtttatt tttgcaaagt cacttaaagt
     2281 gaactttatg cgatggaaat ccactgtgaa atgaaattgt actgttactg ttggcttacc
     2341 tgtgtgttca gcaatctcag ccccaaatta cctggtaacg taaaaggaaa tggagaatcc
     2401 gtctctaatg aatgtagtaa caatggctca ctgtgaagtt tacattgtgt actgaagcat
     2461 gtttcacgtg caggtcagct ggtgttggta ttagaaattc agacgctatt taatttttag
     2521 caaattcttt ttattcatta atggaattgc agaacagaga ttagctgcta agcctttcta
     2581 gaccaattcg atttttactt taatgttatg aatagagtta caggatatgc atgtgtgtgc
     2641 gcggccatgt gattatattt tttatcttat aatagttcat tttcttgggc aagattcttc
     2701 tgtttgcatt ccttctgctg tttggcaaaa tagggttaaa gttactttta ggacattggc
     2761 accattcatc tattgatata ttaatgtact gtggggtgtc ttggtattaa ttccattcaa
     2821 taactaaaca ggtatgggat tttttgatat gcagtgtgtt caaggagcta ggtcgccccc
     2881 tccccgccaa cccgcaaaca gcttatagag ttgtcttcta agatgcctta gagagagctt
     2941 catactgcat ttctttacaa agcaaccaat actcattgct acaaacaaga ttataaattt
     3001 aggagaagag tgagtggaag gagccggagc tgatgacctc tcagggtcat agtatccctt
     3061 tgatcttgta aaaactcccc attgacaact ggtgttcccg tgtggtgaga agacagactg
     3121 ttaccaaatg gcattgagat ccaatccagt attgtggtgg ggactttcaa atcacgcagt
     3181 acagagcctt gccttctatc cagaaagtcg acttaaggtg cagaagcact ctgtggctaa
     3241 ggttttaggt ggctgttcgg ggtgttgcga aagagacatc gcctgtctgg agacataact
     3301 gataatgttt attttcctta tctaagttaa gagatcttat tgttatttat atttttctgg
     3361 tttttgtatt ttaagaaatt aatattaatg gtgtcagagt tttctttttt tattctccct
     3421 tctctctcca ggtcttttac tgatcatggt aaacccacac ggaaagccca aaccgtgttg
     3481 gctattcata gtcatttatg attgcagcca ctctaacagc taagaacagg aacagtgagg
     3541 tagggcctgc taggtcttca agctgttgca ttagcctcct cctgacgctc agaagggaag
     3601 gttctaagtt gtcatatgct ctcttcagaa ttcgctttcc accctgctct gtgcctttag
     3661 ccctcccgca gaggactctc tgtgcatcac ctttaaagac agaaagcagc ccttcaacac
     3721 agacccactc ttcctgctcc tggctttctg tttttttcct tttctttttt ataatggccc
     3781 acatattgaa tattgggctg aaaaacaagt ggaaaagaaa agcatgttgg aaaagatgta
     3841 cgacaggagg ctgtgtatgt atatagagta tgtcaaaagc cttttatttt tatacttcag
     3901 atgctctaaa ttaataaaca taataattac cat
//
