LOCUS       NM_011448               4146 bp    mRNA    linear   ROD 18-MAR-2025
DEFINITION  Mus musculus SRY (sex determining region Y)-box 9 (Sox9), mRNA.
ACCESSION   NM_011448
VERSION     NM_011448.4
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 4146)
  AUTHORS   Hrncir,H.R., Goodloe,B., Bombin,S., Hogan,C.B., Jadi,O. and
            Gracz,A.D.
  TITLE     Sox9 inhibits Activin A to promote biliary maturation and branching
            morphogenesis
  JOURNAL   Nat Commun 16 (1), 1667 (2025)
   PUBMED   39955269
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4146)
  AUTHORS   Allen,R.S., Biswas,S.K. and Seifert,A.W.
  TITLE     Ear pinna growth and differentiation is conserved in murids and
            requires BMP signaling for chondrocyte proliferation
  JOURNAL   Development 152 (3) (2025)
   PUBMED   39846506
REFERENCE   3  (bases 1 to 4146)
  AUTHORS   Palacio,V., Pancho,A., Morabito,A., Malkmus,J., He,Z., Soussi,G.,
            Zeller,R., Treutlein,B. and Zuniga,A.
  TITLE     Single-cell profiling of penta- and tetradactyl mouse limb buds
            identifies mesenchymal progenitors controlling digit numbers and
            identities
  JOURNAL   Nat Commun 16 (1), 1226 (2025)
   PUBMED   39890843
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4146)
  AUTHORS   He,Z., Yan,R.G., Shang,Q.B. and Yang,Q.E.
  TITLE     Transcriptomic dynamics and cell-to-cell communication during the
            transition of prospermatogonia to spermatogonia revealed at
            single-cell resolution
  JOURNAL   BMC Genomics 26 (1), 58 (2025)
   PUBMED   39838296
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4146)
  AUTHORS   Ogawa,Y., Tsuchiya,I., Yanai,S., Baba,T., Morohashi,K.I.,
            Sasaki,T., Sasaki,J., Terao,M., Tsuji-Hosokawa,A. and Takada,S.
  TITLE     GATA4 binding to the Sox9 enhancer mXYSRa/Enh13 is critical for
            testis differentiation in mouse
  JOURNAL   Commun Biol 8 (1), 81 (2025)
   PUBMED   39827212
  REMARK    Erratum:[Commun Biol. 2025 Feb 8;8(1):199. doi:
            10.1038/s42003-025-07618-7. PMID: 39922911]
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4146)
  AUTHORS   Yuan,H., Corbi,N., Basilico,C. and Dailey,L.
  TITLE     Developmental-specific activity of the FGF-4 enhancer requires the
            synergistic action of Sox2 and Oct-3
  JOURNAL   Genes Dev 9 (21), 2635-2645 (1995)
   PUBMED   7590241
REFERENCE   7  (bases 1 to 4146)
  AUTHORS   Holmberg,M., Leonardsson,G. and Ny,T.
  TITLE     The species-specific differences in the cAMP regulation of the
            tissue-type plasminogen activator gene between rat, mouse and human
            is caused by a one-nucleotide substitution in the cAMP-responsive
            element of the promoters
  JOURNAL   Eur J Biochem 231 (2), 466-474 (1995)
   PUBMED   7543410
REFERENCE   8  (bases 1 to 4146)
  AUTHORS   Sanz,L., Moscat,J. and Diaz-Meco,M.T.
  TITLE     Molecular characterization of a novel transcription factor that
            controls stromelysin expression
  JOURNAL   Mol Cell Biol 15 (6), 3164-3170 (1995)
   PUBMED   7760812
REFERENCE   9  (bases 1 to 4146)
  AUTHORS   Wright,E., Hargrave,M.R., Christiansen,J., Cooper,L., Kun,J.,
            Evans,T., Gangadharan,U., Greenfield,A. and Koopman,P.
  TITLE     The Sry-related gene Sox9 is expressed during chondrogenesis in
            mouse embryos
  JOURNAL   Nat Genet 9 (1), 15-20 (1995)
   PUBMED   7704017
REFERENCE   10 (bases 1 to 4146)
  AUTHORS   .
  TITLE     SOX9 and the switch hitting genes
  JOURNAL   Nat Genet 9 (1), 1-2 (1995)
   PUBMED   7704013
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL683879.19 and AK030187.1.
            
            On Jan 18, 2008 this sequence version replaced NM_011448.3.
            
            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 :: AK049986.1, AK220197.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-16                AL683879.19        83325-83340
            17-1945             AK030187.1         2-1930
            1946-4146           AL683879.19        86672-88872
FEATURES             Location/Qualifiers
     source          1..4146
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 77.27 cM"
     gene            1..4146
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /note="SRY (sex determining region Y)-box 9"
                     /db_xref="GeneID:20682"
                     /db_xref="MGI:MGI:98371"
     exon            1..806
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /inference="alignment:Splign:2.1.0"
     CDS             376..1899
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /note="SRY-box containing gene 9"
                     /codon_start=1
                     /product="transcription factor SOX-9"
                     /protein_id="NP_035578.3"
                     /db_xref="CCDS:CCDS25595.1"
                     /db_xref="GeneID:20682"
                     /db_xref="MGI:MGI:98371"
                     /translation="MNLLDPFMKMTDEQEKGLSGAPSPTMSEDSAGSPCPSGSGSDTE
                     NTRPQENTFPKGEPDLKKESEEDKFPVCIREAVSQVLKGYDWTLVPMPVRVNGSSKNK
                     PHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNESEKRPFVEEAER
                     LRVQHKKDHPDYKYQPRRRKSVKNGQAEAEEATEQTHISPNAIFKALQADSPHSSSGM
                     SEVHSPGEHSGQSQGPPTPPTTPKTDVQAGKVDLKREGRPLAEGGRQPPIDFRDVDIG
                     ELSSDVISNIETFDVNEFDQYLPPNGHPGVPATHGQVTYTGSYGISSTAPTPATAGHV
                     WMSKQQAPPPPPQQPPQAPQAPQAPPQQQAPPQQPQAPQQQQAHTLTTLSSEPGQSQR
                     THIKTEQLSPSHYSEQQQHSPQQISYSPFNLPHYSPSYPPITRSQYDYADHQNSGSYY
                     SHAAGQGSGLYSTFTYMNPAQRPMYTPIADTSGVPSIPQTHSPQHWEQPVYTQLTRP"
     exon            807..1060
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /inference="alignment:Splign:2.1.0"
     exon            1061..4146
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2295..2300
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /note="hexamer: AAGAAA"
     polyA_site      2337
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
     regulatory      4132..4137
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /note="hexamer: ATTAAA"
     polyA_site      4144
                     /gene="Sox9"
                     /gene_synonym="2010306G03Rik; mKIAA4243; mSox9"
                     /note="major polyA site"
ORIGIN      
        1 tgagctggaa gtcggagagc cgagagcgct gctcggaact gcctggaaac ttctgtggga
       61 gcgacaactt taccagtttc agtccaggaa cttttctttg caagagagac gaggtgcaag
      121 tggccccggt ttcgttctct gttttccctc cctcctcctc cgctccgact cgccttcccc
      181 gggtttagag ccggcagctg agacccgcca cccagcgcct ctgctaagtg cccgccgccg
      241 cagcccggtg acgcgccaac ctccccggga gccgttcgct cggcgtccgc gtccgggcag
      301 ctgagggaag aggagcccca gccgccgcgg cttctcgcct ttcccggcca cccgccccct
      361 gccccgggct cgcgtatgaa tctcctggac cccttcatga agatgaccga cgagcaggag
      421 aagggcctgt ctggcgcccc cagccccacc atgtcggagg actcggctgg ttcgccctgt
      481 ccctcgggct ccggctcgga cacggagaac acccggcccc aggagaacac cttccccaag
      541 ggcgagccgg atctgaagaa ggagagcgag gaagataagt tccccgtgtg catccgcgag
      601 gcggtcagcc aggtgctgaa gggctacgac tggacgctgg tgcccatgcc cgtgcgcgtc
      661 aacggctcca gcaagaacaa gccacacgtc aagcgaccca tgaacgcctt catggtgtgg
      721 gcgcaggctg cgcgcaggaa gctggcagac cagtacccgc atctgcacaa cgcggagctc
      781 agcaagactc tgggcaagct ctggaggctg ctgaacgaga gcgagaagag acccttcgtg
      841 gaggaggcgg agcggctgcg cgtgcagcac aagaaagacc accccgatta caagtaccag
      901 ccccggcgga ggaagtcggt gaagaacgga caagcggagg ccgaagaggc cacggaacag
      961 actcacatct ctcctaatgc tatcttcaag gcgctgcaag ccgactcccc acattcctcc
     1021 tccggcatga gtgaggtgca ctccccgggc gagcactctg ggcaatctca gggtccgccg
     1081 accccaccca ccactcccaa aaccgacgtg caagctggca aagttgatct gaagcgagag
     1141 gggcgccctc tggcagaggg gggcagacag ccccccatcg acttccgcga cgtggacatc
     1201 ggtgaactga gcagcgacgt catctccaac attgagacct tcgacgtcaa tgagtttgac
     1261 caatacttgc cacccaacgg ccacccaggg gttccggcca cccacggcca ggtcacctac
     1321 actggcagtt acggcatcag cagcaccgca cccacccctg cgaccgcggg ccacgtgtgg
     1381 atgtcgaagc agcaggcgcc gccccctcct ccgcagcagc ctccgcaggc cccgcaagcc
     1441 ccacaggcgc ctccgcagca gcaagcaccc ccgcagcagc cgcaggcacc ccagcagcag
     1501 caggcacaca cgctcaccac gctgagcagc gagccaggcc agtcccagcg aacgcacatc
     1561 aagacggagc agctgagccc cagccactac agcgagcagc agcagcactc cccgcaacag
     1621 atctcctaca gccccttcaa ccttcctcac tacagcccct cctacccgcc catcacccgc
     1681 tcgcaatacg actacgctga ccatcagaac tccggctcct actacagtca cgcagccggc
     1741 cagggctcag ggctctactc caccttcact tacatgaacc ccgcgcagcg ccccatgtac
     1801 acccccatcg ctgacacctc cggggtccct tccatcccgc agacccacag cccgcagcac
     1861 tgggaacaac cagtctacac acagctcacc agaccctgag aagagaaaag ctatggtgac
     1921 agagctgatc tttttttttt ttttttttaa agaagaaaag aaagaaacga aaagaaaaag
     1981 ctgaagaaat caagaaccaa ttgaaattcc tttggacact tttttttttt tgtctgtcgt
     2041 taatttttaa agacatgtaa aggaaggtaa cgattgctgg gattccagga gagagacttt
     2101 aagactttgt ctgagctcat gacaacatat tgcaaatggc cgggccactc gtggccagac
     2161 ggacagcact cctggccaga tggacccacc agtatcagcg aggaggggct tgtctccttc
     2221 agagttaaca tggaggacga ttggagaatc tccctgcctg tttggacttt gtaattattt
     2281 tttagccgta attaaagaaa aaaaaagtcc tctgtgagga atattctcta ttttaaatac
     2341 ttttagtatg tactgtgtat gactcattac cattttgagg ggatttatac atattttaga
     2401 taaaaaaagt taaatgctct tatttttcca acagcttaac tactcctagt tcaagagtgt
     2461 cccttagcct tccttgcaac cagagtattt ttgtacagat ttgctttctc ctaaacaaac
     2521 aaacaaaaac aaaaacaaaa aaaacaaaaa aaaatgaaaa aaaaaaagaa aaatgaaaaa
     2581 agtgtgttgt tatagtaaca taaataatac acagaatttt gttacactat cagtttgggg
     2641 ggtgagcttt gattaattcc ccaggctctt ggatttcaag agtagctgcc ttaaaagaaa
     2701 gaaagaaaaa agaaagaaag gaaggaagga aggaaggaag ggagagagag agagaaagcc
     2761 ttcttttgca ataaggggaa taaacagata acatagagca ttggtgagct ttatcatata
     2821 tatatatata tttttaaaaa acgagaagaa aacaccttga gccttaaatc ccggctgctg
     2881 ggaaagtata tgctgttcct agaacattca ctgtgccttt gcctgcttgc tggctgcagc
     2941 ctcagaagga aagccagggg caagcaaagg agaccaaaat ttcttgggga agatttttca
     3001 cgcagcccta agtgcccaag cacattttcc ctggttgcct cctgggcccc atgtggccag
     3061 cagatgctgg agtctgcctg ctcagactat cacctgtacc tccctgaata ccagcgttta
     3121 accttcaaga catcccatgt gctaaaatta tttattttgt aaggagaagt tttcattttt
     3181 ttttttttaa aaaaaatctc cttccttttt ttctttcttg tttttctttt tcttcttctt
     3241 cttcttcttt ttttttttaa tttactgtct ttaaggtaga ttgttggcgc cttcctcaaa
     3301 gggtatggtc atctgttgtt aaattatgtt cttaactgta accttttgtt gttgttgttt
     3361 ttaatttatc tctttaatct tttttttatt agtaaaagca agtctctttg aattcttcat
     3421 tctagatttg tacaaatgct ttttttgtcc gtcctcgtgg ggtttttttt ctcccccttt
     3481 tctttgttgt tttcgttgtt gttgataaca aactggaaac ctgtctctct ctgtttgtgg
     3541 acaaatgaga ggtttcagat gcagtgagga gcactgagtc ctttgcaatg ttttcagcca
     3601 tagacctttg ggtctgcctg gactgtatgt ggatgtgtgc gtgtgttgtg acacgggaca
     3661 acacatgcct ctgcaagtgt gtgtgccgtg gatagcccct tggctgctct cctgcagaga
     3721 gacatcggac agaccttaat tcttactcac tgctgtggct ggagagtata aggaatgctt
     3781 tttctttttt tctttctttc tttctttttt ttttttaaga cagcagtctt tttttttaat
     3841 ttaaaaaaaa aaagatatat taacagtttt agaagtcagt agaataaaac cttaaagcgt
     3901 tcttataata tggcatcttt cgatttctgt ataaaaacag accttttaaa aaatatttct
     3961 gtaacttaag aaacctgaca tttatgtcat attttctctt taggtaagat ttggtttgtt
     4021 tgtgtcttgt ttgtttccct ctccaaattc ttccttcttt gtgcaccctg cctttcttcc
     4081 cttccatcct ttcttttttg tatattattg tttacaataa atatacattg cattaaagtg
     4141 aaaaca
//
