LOCUS       NM_131169               1196 bp    mRNA    linear   VRT 06-APR-2025
DEFINITION  Danio rerio homeobox D13a (hoxd13a), mRNA.
ACCESSION   NM_131169
VERSION     NM_131169.3
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 1196)
  AUTHORS   Tanaka,Y., Okayama,S., Urakawa,K., Kudoh,H., Ansai,S., Abe,G. and
            Tamura,K.
  TITLE     Anterior-posterior constraint on Hedgehog signaling by hhip in
            teleost fin elaboration
  JOURNAL   Development 151 (22) (2024)
   PUBMED   39417578
REFERENCE   2  (bases 1 to 1196)
  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 1196)
  AUTHORS   Cumplido,N., Arratia,G., Desvignes,T., Munoz-Sanchez,S.,
            Postlethwait,J.H. and Allende,M.L.
  TITLE     Hox genes control homocercal caudal fin development and evolution
  JOURNAL   Sci Adv 10 (3), eadj5991 (2024)
   PUBMED   38241378
REFERENCE   4  (bases 1 to 1196)
  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 1196)
  AUTHORS   Cadete,F., Francisco,M. and Freitas,R.
  TITLE     Bmp-signaling and the finfold size in zebrafish: implications for
            the fin-to-limb transition
  JOURNAL   Evolution 77 (5), 1262-1271 (2023)
   PUBMED   36891971
REFERENCE   6  (bases 1 to 1196)
  AUTHORS   Corredor-Adamez,M., Welten,M.C., Spaink,H.P., Jeffery,J.E.,
            Schoon,R.T., de Bakker,M.A., Bagowski,C.P., Meijer,A.H.,
            Verbeek,F.J. and Richardson,M.K.
  TITLE     Genomic annotation and transcriptome analysis of the zebrafish
            (Danio rerio) hox complex with description of a novel member, hox b
            13a
  JOURNAL   Evol Dev 7 (5), 362-375 (2005)
   PUBMED   16174031
REFERENCE   7  (bases 1 to 1196)
  AUTHORS   Santini,S. and Bernardi,G.
  TITLE     Organization and base composition of tilapia Hox genes:
            implications for the evolution of Hox clusters in fish
  JOURNAL   Gene 346, 51-61 (2005)
   PUBMED   15716008
REFERENCE   8  (bases 1 to 1196)
  AUTHORS   Lavoie,H., Debeane,F., Trinh,Q.D., Turcotte,J.F.,
            Corbeil-Girard,L.P., Dicaire,M.J., Saint-Denis,A., Page,M.,
            Rouleau,G.A. and Brais,B.
  TITLE     Polymorphism, shared functions and convergent evolution of genes
            with sequences coding for polyalanine domains
  JOURNAL   Hum Mol Genet 12 (22), 2967-2979 (2003)
   PUBMED   14519685
REFERENCE   9  (bases 1 to 1196)
  AUTHORS   Fischer,S., Draper,B.W. and Neumann,C.J.
  TITLE     The zebrafish fgf24 mutant identifies an additional level of Fgf
            signaling involved in vertebrate forelimb initiation
  JOURNAL   Development 130 (15), 3515-3524 (2003)
   PUBMED   12810598
REFERENCE   10 (bases 1 to 1196)
  AUTHORS   Herault,Y., Hraba-Renevey,S., van der Hoeven,F. and Duboule,D.
  TITLE     Function of the Evx-2 gene in the morphogenesis of vertebrate limbs
  JOURNAL   EMBO J 15 (23), 6727-6738 (1996)
   PUBMED   8978698
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC091996.1.
            
            On Aug 30, 2012 this sequence version replaced NM_131169.2.
            
            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 :: BC091996.1, BC153652.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505371, SAMEA3505372
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1196              BC091996.1         5-1200
FEATURES             Location/Qualifiers
     source          1..1196
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Singapore"
                     /db_xref="taxon:7955"
                     /chromosome="9"
                     /map="9"
     gene            1..1196
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /note="homeobox D13a"
                     /db_xref="GeneID:30407"
                     /db_xref="ZFIN:ZDB-GENE-990415-119"
     exon            1..609
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    45..47
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /note="upstream in-frame stop codon"
     CDS             72..842
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /note="homeobox gene D-13; homeo box D13a"
                     /codon_start=1
                     /product="homeobox protein Hox-D13a"
                     /protein_id="NP_571244.2"
                     /db_xref="GeneID:30407"
                     /db_xref="ZFIN:ZDB-GENE-990415-119"
                     /translation="

MDGGGLDEEFINVYPSAFGTHSSRCTSGAPVLSAVDRPTSVCNESISPYFSFPSNIGSGSFTFGCHLENSYKVPQNAVFPPGVAKQNGQFANKPVDHGEASSWLKEFAFYQGCARSYPRIPAFIDLPVVQRAMMGDLRHETCLTMEGHQHWDWSNNCSSQLYCFQDQTRSPHIWKPSLTEEAAAASFCQRGRKKRVPYTKFQLKELEREYNTTKFITKENRRRIASSTNLSERQVTIWFQNRRVKDKKRPDVCIKC"

     misc_feature    645..815
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            610..1121
                     /gene="hoxd13a"
                     /gene_synonym="hoxd-13; hoxd13; zgc:110511"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

attttctgcgtgcatttttcttggttttgagcccataacagacatgagttaaatcccatgcactgaggaatatggacggaggaggactggatgaagagtttataaatgtttacccatctgccttcgggactcactcaagccggtgtacatcaggagcgccggtgctctccgctgttgatcgaccgacttctgtatgcaatgagtctatcagtccttacttttcttttccatccaatatcggctctggctccttcacgtttggatgccatttggaaaacagttacaaagttccacagaacgccgtgttcccgcctggtgttgcgaagcaaaacggacagttcgccaataaacccgtggaccacggtgaagcctccagctggcttaaagagttcgccttttatcaaggctgcgcgcgctcctatccgagaatccctgccttcattgatctacctgtggttcagagagcaatgatgggagatcttagacatgagacttgtttgacaatggaaggccaccaacattgggactggtcaaacaattgcagcagtcaactttattgctttcaagaccagacgcggagcccgcatatctggaaaccatcattaacagaggaagcagcagcggcttcattctgtcagcgcgggagaaagaagcgggttccttacacaaaatttcagctgaaagagctcgagcgtgaatacaacaccactaagttcattacaaaggagaacagacggcggatcgcttcttctaccaacctgtctgagagacaagtaactatatggtttcaaaaccgacgggtcaaggataagaagagacctgacgtctgcatcaaatgttaatcccattgagatctttgtagagttggtttgcataaagtaaagagtatattatagtgggatacaatgtaaattatacttagaagtaatgttaaacagttggttgtatttgtcaatcaatgaattctcccgtcaatttcctctttcccatacactcaaaatgttatactctacatttccttaaatttgagtgcataactgtgtgccatagttgtttatatcagacttttatatgcaaaaaagctataacattgatttcaaataaaatacaattaataataaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaattaaaaaaaaaaaaaaaaaaaaaaaaa

//