LOCUS       NM_001024508            2417 bp    mRNA    linear   ROD 03-SEP-2024
DEFINITION  Mus musculus bromodomain containing 9 (Brd9), transcript variant 1,
            mRNA.
ACCESSION   NM_001024508
VERSION     NM_001024508.4
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 2417)
  AUTHORS   Du,J., Liu,Y., Sun,J., Yao,E., Xu,J., Wu,X., Xu,L., Zhou,M.,
            Yang,G. and Jiang,X.
  TITLE     ARID1A safeguards the canalization of the cell fate decision during
            osteoclastogenesis
  JOURNAL   Nat Commun 15 (1), 5994 (2024)
   PUBMED   39013863
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2417)
  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   3  (bases 1 to 2417)
  AUTHORS   Du,J., Liu,Y., Wu,X., Sun,J., Shi,J., Zhang,H., Zheng,A., Zhou,M.
            and Jiang,X.
  TITLE     BRD9-mediated chromatin remodeling suppresses osteoclastogenesis
            through negative feedback mechanism
  JOURNAL   Nat Commun 14 (1), 1413 (2023)
   PUBMED   36918560
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2417)
  AUTHORS   Basuroy,T., Dreier,M., Baum,C., Blomquist,T., Trumbly,R.,
            Filipp,F.V. and de la Serna,I.L.
  TITLE     Epigenetic and pharmacological control of pigmentation via
            Bromodomain Protein 9 (BRD9)
  JOURNAL   Pigment Cell Melanoma Res 36 (1), 19-32 (2023)
   PUBMED   36112085
  REMARK    GeneRIF: Epigenetic and pharmacological control of pigmentation via
            Bromodomain Protein 9 (BRD9).
REFERENCE   5  (bases 1 to 2417)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2417)
  AUTHORS   Gatchalian,J., Malik,S., Ho,J., Lee,D.S., Kelso,T.W.R.,
            Shokhirev,M.N., Dixon,J.R. and Hargreaves,D.C.
  TITLE     A non-canonical BRD9-containing BAF chromatin remodeling complex
            regulates naive pluripotency in mouse embryonic stem cells
  JOURNAL   Nat Commun 9 (1), 5139 (2018)
   PUBMED   30510198
  REMARK    GeneRIF: Bromodomain containing 9 (BRD9) regulates transcription
            for the maintenance of embryonic stem cell (ESC).
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2417)
  AUTHORS   Elsen,G.E., Bedogni,F., Hodge,R.D., Bammler,T.K., MacDonald,J.W.,
            Lindtner,S., Rubenstein,J.L.R. and Hevner,R.F.
  TITLE     The Epigenetic Factor Landscape of Developing Neocortex Is
            Regulated by Transcription Factors Pax6--> Tbr2--> Tbr1
  JOURNAL   Front Neurosci 12, 571 (2018)
   PUBMED   30186101
  REMARK    Publication Status: Online-Only
REFERENCE   8  (bases 1 to 2417)
  AUTHORS   Alpsoy,A. and Dykhuizen,E.C.
  TITLE     Glioma tumor suppressor candidate region gene 1 (GLTSCR1) and its
            paralog GLTSCR1-like form SWI/SNF chromatin remodeling subcomplexes
  JOURNAL   J Biol Chem 293 (11), 3892-3903 (2018)
   PUBMED   29374058
REFERENCE   9  (bases 1 to 2417)
  AUTHORS   Kadoch,C., Hargreaves,D.C., Hodges,C., Elias,L., Ho,L., Ranish,J.
            and Crabtree,G.R.
  TITLE     Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes
            identifies extensive roles in human malignancy
  JOURNAL   Nat Genet 45 (6), 592-601 (2013)
   PUBMED   23644491
REFERENCE   10 (bases 1 to 2417)
  AUTHORS   Wiese,C.B., Ireland,S., Fleming,N.L., Yu,J., Valerius,M.T.,
            Georgas,K., Chiu,H.S., Brennan,J., Armstrong,J., Little,M.H.,
            McMahon,A.P. and Southard-Smith,E.M.
  TITLE     A genome-wide screen to identify transcription factors expressed in
            pelvic Ganglia of the lower urinary tract
  JOURNAL   Front Neurosci 6, 130 (2012)
   PUBMED   22988430
  REMARK    Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CT010471.11.
            
            On Jun 3, 2021 this sequence version replaced NM_001024508.3.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC031484.1, SRR7974084.17821.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-118               CT010471.11        130607-130724       c
            119-333             CT010471.11        129904-130118       c
            334-466             CT010471.11        129555-129687       c
            467-527             CT010471.11        128255-128315       c
            528-672             CT010471.11        127762-127906       c
            673-783             CT010471.11        126498-126608       c
            784-899             CT010471.11        125746-125861       c
            900-1032            CT010471.11        123694-123826       c
            1033-1108           CT010471.11        122393-122468       c
            1109-1204           CT010471.11        120780-120875       c
            1205-1337           CT010471.11        118345-118477       c
            1338-1449           CT010471.11        116907-117018       c
            1450-1488           CT010471.11        113969-114007       c
            1489-1591           CT010471.11        113028-113130       c
            1592-1759           CT010471.11        110672-110839       c
            1760-2417           CT010471.11        107657-108314       c
FEATURES             Location/Qualifiers
     source          1..2417
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 40.15 cM"
     gene            1..2417
                     /gene="Brd9"
                     /note="bromodomain containing 9"
                     /db_xref="GeneID:105246"
                     /db_xref="MGI:MGI:2145317"
     exon            1..118
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     CDS             67..1860
                     /gene="Brd9"
                     /note="isoform 1 is encoded by transcript variant 1;
                     bromodomain-containing protein 9"
                     /codon_start=1
                     /product="bromodomain-containing protein 9 isoform 1"
                     /protein_id="NP_001019679.2"
                     /db_xref="CCDS:CCDS36728.1"
                     /db_xref="GeneID:105246"
                     /db_xref="MGI:MGI:2145317"
                     /translation="MGKKHKKHKAEWRSSYEDYTDTPLEKPLKLVLKVGGSEVTELSG
                     SGHDSSYYDDRSDHERERHREKKKKKKKKSEKEKHLDEEERRKRKEEKKRKREKEHCD
                     SEGEADAFDPGKKVEVEPPPDRPVRACRTQPAENESTPIQRLLEHFLRQLQRKDPHGF
                     FAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRP
                     DTVYYKLAKKILHAGFKMMSKQAALLGSEDPAAEEPVPEVVPVQVETTKKSKKPSREV
                     ISCMFEPEGNACSLTDSTAEEHVLALVEHAADEARDRINRFLPGGKMGYLKKLGDGSL
                     LYSVVNAPEPDADEEETHPVDLSSLSSKLLPGFTTLGFKDERRNKVTFLSSASTALSM
                     QNNSVFGDLKSDEMELLYSAYGDETGVQCALSLQEFVKDAGSYSKKMVDDLLDQITGG
                     DHSRMIFQLKQRRSIPMRPADEMKVGDPLGESGGPVLDFMSMKQYPDVSLDVSMLSSL
                     GKVKKELDHEDSHLNLDETARLLQDLHEAQAERGGSRPSSNLSSLSTASEREHPPPGS
                     PSRLSVGEQPDVAHDPYEFLQSPEPAAPAKN"
     exon            119..333
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            334..466
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            467..527
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            528..672
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            673..783
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            784..899
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            900..1032
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1033..1108
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1109..1204
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1205..1337
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1338..1449
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1450..1488
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1489..1591
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1592..1759
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     exon            1760..2417
                     /gene="Brd9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2313..2318
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Brd9"
                     /note="hexamer: AATGAA"
     polyA_site      2339
                     /gene="Brd9"
                     /note="major polyA site"
     regulatory      2387..2392
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Brd9"
                     /note="hexamer: AATAAA"
     polyA_site      2417
                     /gene="Brd9"
                     /note="major polyA site"
ORIGIN      
        1 acttccgact ggcgcaggtc gagctaccgg cagccgcttc tcaccggatc ccgtgctatc
       61 tcagccatgg gcaaaaagca caagaagcac aaggcggaat ggcgctcgtc ctacgaagat
      121 tatacagaca cgccactgga gaagcctctg aagctggtgc tcaaggtggg aggaagtgaa
      181 gtgacagagc tctcaggatc tggccacgac tccagctact acgacgatcg ctcagaccac
      241 gaacgggaga gacacagaga aaagaagaaa aagaagaaga aaaagtcaga gaaggagaag
      301 cacctcgatg aggaggagag gaggaagcgg aaggaagaga agaaacggaa acgggagaag
      361 gaacactgcg actcagaggg ggaggctgat gctttcgacc ctggaaagaa ggtggaggtg
      421 gagccacccc cagaccgacc agtgagagcc tgccgaacac agccagctga gaacgagagc
      481 acacctatcc agaggcttct ggaacacttc ctccgccagc tacagagaaa agatcctcat
      541 ggattttttg cttttcctgt tacggatgca attgctcctg ggtattcaat gataataaaa
      601 catcctatgg actttggcac gatgaaagac aagattgtag ctaatgaata taaatcagtc
      661 acagaattta aggcagattt caaattaatg tgtgataatg cgatgacgta caatagacca
      721 gacaccgtgt actacaaatt agccaagaag atcctgcacg cgggctttaa gatgatgagc
      781 aaacaggcag ctctcttggg cagtgaagac ccagcagctg aggaacctgt tcccgaggtt
      841 gtcccagtgc aagtagaaac taccaagaaa tccaaaaagc cgagtagaga agttatcagc
      901 tgcatgtttg agcctgaagg gaatgcctgc agcctgacag acagcacggc agaggagcat
      961 gtgctagccc tggtagagca cgcagctgat gaggctcggg acaggattaa ccggtttctc
     1021 ccgggtggca agatggggta cctgaagaag cttggagatg gaagtctgct ctacagcgtg
     1081 gtgaacgcac ctgagcctga tgctgatgag gaggagacac accctgtgga cctgagttca
     1141 ctgtctagca agttgctccc aggttttaca acattgggtt tcaaagatga aagaagaaat
     1201 aaagtcacat tcctctccag tgccagcact gcactttcaa tgcagaacaa ctctgtgttt
     1261 ggggacctga agtcagatga gatggagctt ctgtattccg cctatggaga tgagactggt
     1321 gtgcagtgtg cactgagcct gcaggaattc gtgaaggatg ctggaagcta tagcaagaag
     1381 atggtagatg acctcctgga ccaaatcaca ggtggtgatc actcaaggat gatcttccag
     1441 ctgaagcaga ggaggagcat ccccatgaga cctgcagatg agatgaaggt tggggatcca
     1501 ctgggagaga gtggtggccc tgttctggac ttcatgtcaa tgaaacagta tcctgatgtc
     1561 tccctggatg tgtccatgct cagctctctc gggaaagtaa agaaggagct ggaccatgaa
     1621 gatagccact tgaacttgga tgagacagcc aggctcctgc aggacttaca cgaagcacaa
     1681 gcagagcgag gaggctctcg gccatcctcc aaccttagct ctctgtccac tgcctctgag
     1741 agggagcatc ctcctccagg aagtccttct cgccttagtg ttggggagca gccggatgtc
     1801 gcccacgacc cttatgaatt ccttcagtct ccagaacctg cagctcctgc caagaactaa
     1861 cttgtggtgt tcccagatgg tttattttat ttttctacat tttatttgat acagtttttg
     1921 tcacaagaca gaaacttttg tctcatcctc tctggcaagt agcagcctga ggaagatgct
     1981 ggcttgtctg taccgtcacg tctgcagcag aggcccagta gcaccgaatg gtgtccaata
     2041 agctctgagc agtggcaata gaatgtcaac ggattgcaat cagatggctc aactctgtgt
     2101 ctcctgagca ccagcagcca agcctgttca tgatgatgtg cacacagtca ttctacagga
     2161 gctttgcaca gccttcctgc agttctcaaa ggggagcctg cagactaggc cttcagaggg
     2221 ttccttctgt ttcctatttg ggcactgagc cagaggatgg agttgtctcc ctgacaaata
     2281 atgaaccacc ccacctttta gaatgaagta taaatgaagt cataaaatgt ttcaatgttt
     2341 tgctgagtac ctgtttgtat ttataaaaaa catgaacaca ggtcctaata aagagatgcc
     2401 taaggcggta actctga
//
