LOCUS       NM_001044912            1181 bp    mRNA    linear   VRT 01-JUN-2024
DEFINITION  Danio rerio homeobox B13a (hoxb13a), mRNA.
ACCESSION   NM_001044912 XM_683317
VERSION     NM_001044912.1
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 1181)
  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   2  (bases 1 to 1181)
  AUTHORS   Gao,Y., Jin,Q., Gao,C., Chen,Y., Sun,Z., Guo,G. and Peng,J.
  TITLE     Unraveling Differential Transcriptomes and Cell Types in Zebrafish
            Larvae Intestine and Liver
  JOURNAL   Cells 11 (20), 3290 (2022)
   PUBMED   36291156
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1181)
  AUTHORS   Weiss,J.M., Hunter,M.V., Cruz,N.M., Baggiolini,A., Tagore,M.,
            Ma,Y., Misale,S., Marasco,M., Simon-Vermot,T., Campbell,N.R.,
            Newell,F., Wilmott,J.S., Johansson,P.A., Thompson,J.F., Long,G.V.,
            Pearson,J.V., Mann,G.J., Scolyer,R.A., Waddell,N., Montal,E.D.,
            Huang,T.H., Jonsson,P., Donoghue,M.T.A., Harris,C.C., Taylor,B.S.,
            Xu,T., Chaligne,R., Shliaha,P.V., Hendrickson,R., Jungbluth,A.A.,
            Lezcano,C., Koche,R., Studer,L., Ariyan,C.E., Solit,D.B.,
            Wolchok,J.D., Merghoub,T., Rosen,N., Hayward,N.K. and White,R.M.
  TITLE     Anatomic position determines oncogenic specificity in melanoma
  JOURNAL   Nature 604 (7905), 354-361 (2022)
   PUBMED   35355015
REFERENCE   4  (bases 1 to 1181)
  AUTHORS   Yamada,K., Maeno,A., Araki,S., Kikuchi,M., Suzuki,M., Ishizaka,M.,
            Satoh,K., Akama,K., Kawabe,Y., Suzuki,K., Kobayashi,D., Hamano,N.
            and Kawamura,A.
  TITLE     An atlas of seven zebrafish hox cluster mutants provides insights
            into sub/neofunctionalization of vertebrate Hox clusters
  JOURNAL   Development 148 (11) (2021)
   PUBMED   34096572
REFERENCE   5  (bases 1 to 1181)
  AUTHORS   Malmstrom,M., Britz,R., Matschiner,M., Torresen,O.K., Hadiaty,R.K.,
            Yaakob,N., Tan,H.H., Jakobsen,K.S., Salzburger,W. and Ruber,L.
  TITLE     The Most Developmentally Truncated Fishes Show Extensive Hox Gene
            Loss and Miniaturized Genomes
  JOURNAL   Genome Biol Evol 10 (4), 1088-1103 (2018)
   PUBMED   29684203
REFERENCE   6  (bases 1 to 1181)
  AUTHORS   Kurosawa,G., Takamatsu,N., Takahashi,M., Sumitomo,M., Sanaka,E.,
            Yamada,K., Nishii,K., Matsuda,M., Asakawa,S., Ishiguro,H.,
            Miura,K., Kurosawa,Y., Shimizu,N., Kohara,Y. and Hori,H.
  TITLE     Organization and structure of hox gene loci in medaka genome and
            comparison with those of pufferfish and zebrafish genomes
  JOURNAL   Gene 370, 75-82 (2006)
   PUBMED   16472944
  REMARK    Erratum:[Gene. 2006 Jul;376(2):298-9]
REFERENCE   7  (bases 1 to 1181)
  AUTHORS   Miska,E.A.
  TITLE     How microRNAs control cell division, differentiation and death
  JOURNAL   Curr Opin Genet Dev 15 (5), 563-568 (2005)
   PUBMED   16099643
  REMARK    Review article
REFERENCE   8  (bases 1 to 1181)
  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   9  (bases 1 to 1181)
  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   10 (bases 1 to 1181)
  AUTHORS   Prohaska,S.J. and Stadler,P.F.
  TITLE     The duplication of the Hox gene clusters in teleost fishes
  JOURNAL   Theory Biosci 123 (1), 89-110 (2004)
   PUBMED   18202881
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC117625.1.
            
            On Sep 1, 2006 this sequence version replaced XM_683317.1.
            
            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 :: BC117625.1, DQ060545.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1181
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="3"
                     /map="3"
     gene            1..1181
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /note="homeobox B13a"
                     /db_xref="GeneID:559921"
                     /db_xref="ZFIN:ZDB-GENE-050812-1"
     exon            1..758
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /inference="alignment:Splign:2.1.0"
     CDS             95..1006
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /note="homeo box B13a"
                     /codon_start=1
                     /product="homeobox protein Hox-B13a"
                     /protein_id="NP_001038377.1"
                     /db_xref="GeneID:559921"
                     /db_xref="ZFIN:ZDB-GENE-050812-1"
                     /translation="

MTTSLVLNPRWADTVMFVYENNLDELKNMEGLVGSGNFAANQCRNLMAHSALSGHPSSLVHGSSYPTVDVSTSSSAESGKQCTPCPTVPQASSTGPIPYGYFGNSYYPCRMGRGSLKSCTQPSALSYTAEKYMDTPVTSEEYPTRAKEFAFYHSYPSPYQSMASYLDVSVVQTLGTGEPRHDSLLPMDSYQPWALANGWGSQMYCSKDQGQAGHLWKSALADVVAHQHDGGSFRRGRKKRIPYTKVQLKELEKEYAANKFITKDKRRKISAVTNLSERQITIWFQNRRVKEKKFIAKVKNTAP"

     misc_feature    173..529
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /note="Hox protein A13 N terminal; Region: HoxA13_N;
                     pfam12284"
                     /db_xref="CDD:463521"
     misc_feature    803..973
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            759..1169
                     /gene="hoxb13a"
                     /gene_synonym="zgc:136601"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

attgcgtcaatgcagctgtaccaatgtaactgagtgtcctgctttggactggagtctttgcaacataattttccgtccgaatggtgagcgtgctatgaccacctccctggtcctgaatcctcgctgggcagacacggttatgtttgtatatgaaaacaacttggatgagctgaagaatatggagggtttggttggaagcggcaattttgcagccaaccagtgcaggaatctgatggcccactcggcgttgagtggtcacccgtctagccttgtccatggctccagctatcccactgtggacgtatcgacttcaagttcggcggagtcgggaaagcagtgcacaccttgcccaacagttccacaggcctcgtccacaggtcccatcccgtacggctactttggcaacagctattatccttgcagaatggggcggggttccctcaaatcctgcacgcagccgagtgcactcagctacactgcagaaaaatacatggataccccagtcacgtctgaagaatatcctaccagggctaaagagtttgctttttaccacagctatcccagtccttatcagtccatggccagttatttggatgtgtcagttgtacagacgcttggaactggggagccgcgacacgatagtctcctgccaatggacagctaccaaccgtgggcactggctaacggatggggtagtcagatgtactgttccaaggaccagggccaggcgggtcatctctggaagtctgcattagcagatgttgtggcccaccaacatgacgggggctcattccgtcgaggtagaaagaagcggataccttacacaaaagtacaactcaaggaactggagaaagaatatgcagccaacaaattcatcacaaaggacaagaggagaaagatttcagcagtaaccaacttatccgagcgtcaaatcacaatttggtttcaaaataggagggttaaggaaaagaagttcattgccaaagttaaaaacaccgcgccatagctttgaacaactcatttgtttttctcggtgacttaaaaattgagagaagttttaaaaagggaggacttttttcttggactggggggttgaatgttttctcctctcagcgcatttacaccaaacaaataaatggatggataaaaaatgaataaacttaataaaaaaaaaaaaaaaa

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