LOCUS       NM_131532               1770 bp    mRNA    linear   VRT 13-JUL-2025
DEFINITION  Danio rerio homeobox A9a (hoxa9a), mRNA.
ACCESSION   NM_131532
VERSION     NM_131532.2
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 1770)
  AUTHORS   Satoh,K., Maeno,A., Adachi,U., Ishizaka,M., Yamada,K., Koita,R.,
            Nakazawa,H., Oikawa,S., Fujii,R., Furudate,H. and Kawamura,A.
  TITLE     Physical constraints on the positions and dimensions of the
            zebrafish swim bladder by surrounding bones
  JOURNAL   J Anat 246 (4), 534-543 (2025)
   PUBMED   39556020
REFERENCE   2  (bases 1 to 1770)
  AUTHORS   Ishizaka,M., Maeno,A., Nakazawa,H., Fujii,R., Oikawa,S., Tani,T.,
            Kanno,H., Koita,R. and Kawamura,A.
  TITLE     The functional roles of zebrafish HoxA- and HoxD-related clusters
            in the pectoral fin development
  JOURNAL   Sci Rep 14 (1), 23602 (2024)
   PUBMED   39384796
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1770)
  AUTHORS   Wei,X., Wang,W., Yin,Q., Li,H., Ahmed,A., Ullah,R., Li,W. and
            Jing,L.
  TITLE     In Vivo Chemical Screening in Zebrafish Embryos Identified
            FDA-Approved Drugs That Induce Differentiation of Acute Myeloid
            Leukemia Cells
  JOURNAL   Int J Mol Sci 25 (14), 7798 (2024)
   PUBMED   39063039
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1770)
  AUTHORS   Sundaramoorthi,H., Fallatah,W., Mary,J. and Jagadeeswaran,P.
  TITLE     Discovery of seven hox genes in zebrafish thrombopoiesis
  JOURNAL   Blood Cells Mol Dis 104, 102796 (2024)
   PUBMED   37717409
REFERENCE   5  (bases 1 to 1770)
  AUTHORS   Wang,H., He,J., Han,X., Wu,X., Ye,X., Lv,W. and Zu,Y.
  TITLE     hoxa1a-Null Zebrafish as a Model for Studying HOXA1-Associated
            Heart Malformation in Bosley-Salih-Alorainy Syndrome
  JOURNAL   Biology (Basel) 12 (7), 899 (2023)
   PUBMED   37508332
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1770)
  AUTHORS   Shimizu,T., Bae,Y.K., Muraoka,O. and Hibi,M.
  TITLE     Interaction of Wnt and caudal-related genes in zebrafish posterior
            body formation
  JOURNAL   Dev Biol 279 (1), 125-141 (2005)
   PUBMED   15708563
REFERENCE   7  (bases 1 to 1770)
  AUTHORS   Yekta,S., Shih,I.H. and Bartel,D.P.
  TITLE     MicroRNA-directed cleavage of HOXB8 mRNA
  JOURNAL   Science 304 (5670), 594-596 (2004)
   PUBMED   15105502
REFERENCE   8  (bases 1 to 1770)
  AUTHORS   Davidson,A.J., Ernst,P., Wang,Y., Dekens,M.P., Kingsley,P.D.,
            Palis,J., Korsmeyer,S.J., Daley,G.Q. and Zon,L.I.
  TITLE     cdx4 mutants fail to specify blood progenitors and can be rescued
            by multiple hox genes
  JOURNAL   Nature 425 (6955), 300-306 (2003)
   PUBMED   13679919
REFERENCE   9  (bases 1 to 1770)
  AUTHORS   Chiu,C.H., Amemiya,C., Dewar,K., Kim,C.B., Ruddle,F.H. and
            Wagner,G.P.
  TITLE     Molecular evolution of the HoxA cluster in the three major
            gnathostome lineages
  JOURNAL   Proc Natl Acad Sci U S A 99 (8), 5492-5497 (2002)
   PUBMED   11943847
REFERENCE   10 (bases 1 to 1770)
  AUTHORS   Ahn,D.G. and Gibson,G.
  TITLE     Expression patterns of threespine stickleback hox genes and
            insights into the evolution of the vertebrate body axis
  JOURNAL   Dev Genes Evol 209 (8), 482-494 (1999)
   PUBMED   10415325
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC090700.1.
            
            On Apr 20, 2005 this sequence version replaced NM_131532.1.
            
            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 :: BC090700.1, CT677226.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1770
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Singapore"
                     /db_xref="taxon:7955"
                     /chromosome="19"
                     /map="19"
     gene            1..1770
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="homeobox A9a"
                     /db_xref="GeneID:58047"
                     /db_xref="ZFIN:ZDB-GENE-000823-1"
     misc_feature    64..66
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="upstream in-frame stop codon"
     CDS             82..834
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="homeobox gene X-9; homeo box A9a"
                     /codon_start=1
                     /product="homeobox protein Hox-A9a"
                     /protein_id="NP_571607.2"
                     /db_xref="GeneID:58047"
                     /db_xref="ZFIN:ZDB-GENE-000823-1"
                     /translation="

MSTSGALTGYYVDSIVIPGSEETRFSSGLGLIQHRPTILPADLSDLGPCTFPAKQPVYGTSDWGHIPTHFSTGVPSVYQPHAQPPVVGDYVQSWLLDSACGLPQTEPPTVNHNHAKSDTNETNDDGTEYSPHTILQPEVFTNGGCSTKTEAESSRTAEKSGDIEGKPGADPENPVSNWLHASSTRKKRCPYTKHQILELEKEFLFNTYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKFNKNETKED"

     misc_feature    82..594
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="Hox9 activation region; Region: Hox9_act;
                     pfam04617"
                     /db_xref="CDD:461369"
     misc_feature    394..612
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL6.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    634..804
                     /gene="hoxa9a"
                     /gene_synonym="fd07f09; hoxx9; wu:fd07f09; z-10;
                     zgc:110505"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
ORIGIN      

gggggtgagtgtgtcactgtatgtgtgtgttatttttaatgtgtgtgtgtgtgtgtgtgtgcatgagagagcgctcctgccatgtcgacatccggagctttgacaggatactacgttgactctattgttataccgggcagcgaggagactcgcttctcctcgggtttagggcttattcagcacaggccaaccattctacctgcagacctttcagacctcggcccctgcacattcccggcaaagcaacccgtttatggtacctcagattgggggcacatcccaacgcacttctccactggtgtaccgtcagtatatcagccccatgcgcaacctccagtagttggggattatgtgcagtcttggctcttggattctgcatgtgggttacctcaaactgagccaccgacggttaatcacaatcatgccaaatccgatacgaatgaaacgaatgatgacggcacggaatacagtccgcatactatactacagcctgaagtcttcacaaacggaggatgttctaccaaaacagaagcagaatctagccgaactgctgaaaagagtggcgacatcgaggggaaaccgggcgctgatccagaaaaccctgtgtccaactggctccatgcgagctcgacgcgtaaaaaacgctgtccttatactaagcaccagatcctcgagctggagaaagagtttttatttaacacttacctcacgcgcgaccggcgatacgaagtcgcccgtctactgaacctcacggagagacaggtcaaaatttggttccaaaaccgcaggatgaagatgaaaaagttcaacaaaaatgaaacgaaggaagactaagactaaagcacttcatgtaggtgaggatgagagatgatccatcctgttactgaatttattttgttgtgggattttacgttagattttgtgtccttttttaagtagcctaaattataaatgtcttaaagcatgctgggatcaagttgtttcataagtaaatttgactgtttgtttgtcgtaattggtttcatgttaaggcacaacttcctttagtttgtttttcgacgcaggtttgaatattaaagaaaaaacggtattattcaggttagattttttaaggaatgaatgaacgttgaatccaactgtgctatccccttcggttttagattagtatattgtatatcagcgttgcatatttcagacgctaattagctaataatgtagctttagaccgaggattttaagttcatgcatttctgcaaagatttacaaaatgtggcctaagaactggcttttgtaatgtcattaccactacctatagtcacttcactgccttttttattcgaacaaatttttcatgccatatcaacagatatgatattggatgaagtttacgaacttcagggaacaagtgaaacatgaacagtagatacaaaagtattgtaggcaactatacaaatacctcatggtctgttgaccttcattgcgttttttttatttgtttttatttgtttacatttcttagatgtattctgtgattttatttattgaataataaaagcatttcatatctccaaatatgtctgccttaaattttgtagtctgttttatatttttaatagcatttacgttgaaaaaaatatgtaatacgttacttgtaaatgtaaggttttatagattgttttatgcttgtgttttttgaatacatgtgcattctgtaacatgagaaaaataaatgtattgaatttaaattagataaaaaaaaaaaaaaaaaaa

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