LOCUS       NM_131535               1366 bp    mRNA    linear   VRT 07-DEC-2024
DEFINITION  Danio rerio homeobox A4a (hoxa4a), mRNA.
ACCESSION   NM_131535 XM_680783 XM_703073 XM_703074
VERSION     NM_131535.1
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 1366)
  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   2  (bases 1 to 1366)
  AUTHORS   Williams,M.B., Green,G.B., Palmer,J.W., Fay,C.X., Chehade,S.B.,
            Lawrence,A.L., Barry,R.J., Powell,M.L., Harris,M.L. and Watts,S.A.
  TITLE     Replacement of Dietary Fish Protein with Bacterial Protein Results
            in Decreased Adiposity Coupled with Liver Gene Expression Changes
            in Female Danio rerio
  JOURNAL   Curr Dev Nutr 8 (1), 102057 (2023)
   PUBMED   38234580
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1366)
  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   4  (bases 1 to 1366)
  AUTHORS   Kimura,Y. and Higashijima,S.I.
  TITLE     Regulation of locomotor speed and selection of active sets of
            neurons by V1 neurons
  JOURNAL   Nat Commun 10 (1), 2268 (2019)
   PUBMED   31118414
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1366)
  AUTHORS   Barsh,G.R., Isabella,A.J. and Moens,C.B.
  TITLE     Vagus Motor Neuron Topographic Map Determined by Parallel
            Mechanisms of hox5 Expression and Time of Axon Initiation
  JOURNAL   Curr Biol 27 (24), 3812-3825 (2017)
   PUBMED   29225029
REFERENCE   6  (bases 1 to 1366)
  AUTHORS   Amores,A., Suzuki,T., Yan,Y.L., Pomeroy,J., Singer,A., Amemiya,C.
            and Postlethwait,J.H.
  TITLE     Developmental roles of pufferfish Hox clusters and genome evolution
            in ray-fin fish
  JOURNAL   Genome Res 14 (1), 1-10 (2004)
   PUBMED   14707165
REFERENCE   7  (bases 1 to 1366)
  AUTHORS   Scemama,J.L., Hunter,M., McCallum,J., Prince,V. and Stellwag,E.
  TITLE     Evolutionary divergence of vertebrate Hoxb2 expression patterns and
            transcriptional regulatory loci
  JOURNAL   J Exp Zool 294 (3), 285-299 (2002)
   PUBMED   12362434
REFERENCE   8  (bases 1 to 1366)
  AUTHORS   Moens,C.B. and Prince,V.E.
  TITLE     Constructing the hindbrain: insights from the zebrafish
  JOURNAL   Dev Dyn 224 (1), 1-17 (2002)
   PUBMED   11984869
  REMARK    Review article
REFERENCE   9  (bases 1 to 1366)
  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 1366)
  AUTHORS   Gong,Z., Yan,T., Liao,J., Lee,S.E., He,J. and Hew,C.L.
  TITLE     Rapid identification and isolation of zebrafish cDNA clones
  JOURNAL   Gene 201 (1-2), 87-98 (1997)
   PUBMED   9409775
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC122457.1.
            
            On or before Aug 28, 2006 this sequence version replaced
            XM_680783.1, XM_703073.1, XM_703074.1.
            
            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 :: BC122457.1, CT590652.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1366
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="19"
                     /map="19"
     gene            1..1366
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="homeobox A4a"
                     /db_xref="GeneID:58050"
                     /db_xref="ZFIN:ZDB-GENE-000823-4"
     exon            1..469
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    25..27
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="upstream in-frame stop codon"
     CDS             58..795
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="homeobox protein Zf-26; homeobox gene X-4; homeo
                     box A4a"
                     /codon_start=1
                     /product="homeobox protein Hox-A4a"
                     /protein_id="NP_571610.1"
                     /db_xref="GeneID:58050"
                     /db_xref="ZFIN:ZDB-GENE-000823-4"
                     /translation="

MIMSSYLINSNYIEPSFPPCEEYHQNGYMPVSSDYYERPKDPGFPHHEEASYPRSNYQEQSYDYGNVSTNDLNDFSDRHHAQPQSVSQNHGPRLTTESCVGSDGNKDCSLVSDALPGSQKSKEPVVYPWMKKVHVNTVTASYSGGVPKRSRTAYTRQQALELEKEFHFNRYLTRRRRVEIAHTMCLSERQVKIWFQNRRMKWKKDHKLPNTKIRSSSSAPSNHHVKTDATQQQQTLLPTPCSSNL"

     misc_feature    157..354
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL5.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    433..450
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL5.2);
                     Region: Antp-type hexapeptide"
     misc_feature    499..669
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    670..792
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL5.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            470..1336
                     /gene="hoxa4a"
                     /gene_synonym="hoxx4; hoxzf26; im:6899783; ns:zf-es36;
                     zf-es36"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

agagatcagaatacgacagcaccataaaaattagaattgttgcactttttcaaattaatgatcatgagttcctacttgatcaattcaaattacatcgaaccttctttcccaccctgcgaggaatatcaccagaacggatacatgcccgtatcctctgattattatgaacggccgaaagacccgggcttcccccatcacgaggaggcatcatacccgcgatcaaactaccaagagcagagctatgattacggtaatgtgtcaaccaacgatctcaacgatttcagcgaccgtcatcacgcgcaacctcaatccgtttcgcagaatcatggaccccgcctcaccacagaaagctgtgtgggttcggatggaaacaaggactgtagcctcgtgtcagacgctctcccgggctcacagaagagtaaagaaccagtggtgtacccctggatgaaaaaagtccatgttaataccgtgaccgccagctactctggaggagtgcccaagaggtctcgcaccgcctacacgcgccagcaggctcttgagcttgaaaaagagttccattttaaccgatacctgactcgacgtcgacgtgtggagatagcgcacactatgtgtctttctgagcgtcaggtgaaaatctggtttcagaaccgccgcatgaagtggaagaaagaccacaagctgcccaatacaaagatccgctcctcgagctctgcaccctccaaccatcacgtgaaaacggacgccactcagcagcagcaaacgctgcttcctacgccgtgttcctctaacctatagtgctagaagcaaatcggcacaaacggaactgaacaagaaagaagaacacttagcagtatttggatcggaacttcacagggttactttttattaaatgcccaaagtggcaacctaacttcgcattcacaacctcttcctccattgtagtttggaaatcccattcttcctgtaaaatagaattgcctcccttaaaggaacaatagtagaatgtactttaacttggacaatggctcgttttgttttctgtcgttaaccgagtcacttagtcttgtttgtgggaatcaacgctatagtgacgcgtgtacaaaccgaagttttaacatgaaggcacaataatataggaataatcttcctgaagtagttatctcatttgtcttagaaccgcattttagagtgttattaagtgtatttacgtcatcaaagctgtgaatattcgtgtatttggtcatttgtatattggtaaaagatgtcaagttttagtaagcctgtgtgcaagtaattgtaggctaatcgtgaaaaataaatatgactttattgtgaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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