LOCUS       NM_001045371            1446 bp    mRNA    linear   VRT 08-JUN-2024
DEFINITION  Danio rerio H6 family homeobox 4 (hmx4), mRNA.
ACCESSION   NM_001045371
VERSION     NM_001045371.1
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 1446)
  AUTHORS   Letelier,J., Buono,L., Almuedo-Castillo,M., Zang,J., Mounieres,C.,
            Gonzalez-Diaz,S., Polvillo,R., Sanabria-Reinoso,E., Corbacho,J.,
            Sousa-Ortega,A., Diez Del Corral,R., Neuhauss,S.C.F. and
            Martinez-Morales,J.R.
  TITLE     Mutation of vsx genes in zebrafish highlights the robustness of the
            retinal specification network
  JOURNAL   Elife 12, e85594 (2023)
   PUBMED   37227126
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1446)
  AUTHORS   Spead,O., Weaver,C.J., Moreland,T. and Poulain,F.E.
  TITLE     Live imaging of retinotectal mapping reveals topographic map
            dynamics and a previously undescribed role for Contactin 2 in map
            sharpening
  JOURNAL   Development 148 (22) (2021)
   PUBMED   34698769
REFERENCE   3  (bases 1 to 1446)
  AUTHORS   England,S.J., Cerda,G.A., Kowalchuk,A., Sorice,T., Grieb,G. and
            Lewis,K.E.
  TITLE     Hmx3a Has Essential Functions in Zebrafish Spinal Cord, Ear and
            Lateral Line Development
  JOURNAL   Genetics 216 (4), 1153-1185 (2020)
   PUBMED   33077489
REFERENCE   4  (bases 1 to 1446)
  AUTHORS   Song,P. and Perkins,B.D.
  TITLE     Developmental expression of the zebrafish Arf-like small GTPase
            paralogs arl13a and arl13b
  JOURNAL   Gene Expr Patterns 29, 82-87 (2018)
   PUBMED   30009987
REFERENCE   5  (bases 1 to 1446)
  AUTHORS   Kelly,L.E. and El-Hodiri,H.M.
  TITLE     Xenopus laevis Nkx5.3 and sensory organ homeobox (SOHo) are
            expressed in developing sensory organs and ganglia of the head and
            anterior trunk
  JOURNAL   Dev Genes Evol 226 (6), 423-428 (2016)
   PUBMED   27392729
REFERENCE   6  (bases 1 to 1446)
  AUTHORS   Feng,Y. and Xu,Q.
  TITLE     Pivotal role of hmx2 and hmx3 in zebrafish inner ear and lateral
            line development
  JOURNAL   Dev Biol 339 (2), 507-518 (2010)
   PUBMED   20043901
REFERENCE   7  (bases 1 to 1446)
  AUTHORS   Wotton,K.R., Weierud,F.K., Juarez-Morales,J.L., Alvares,L.E.,
            Dietrich,S. and Lewis,K.E.
  TITLE     Conservation of gene linkage in dispersed vertebrate NK homeobox
            clusters
  JOURNAL   Dev Genes Evol 219 (9-10), 481-496 (2009)
   PUBMED   20112453
REFERENCE   8  (bases 1 to 1446)
  AUTHORS   French,C.R., Erickson,T., Callander,D., Berry,K.M., Koss,R.,
            Hagey,D.W., Stout,J., Wuennenberg-Stapleton,K., Ngai,J., Moens,C.B.
            and Waskiewicz,A.J.
  TITLE     Pbx homeodomain proteins pattern both the zebrafish retina and
            tectum
  JOURNAL   BMC Dev Biol 7, 85 (2007)
   PUBMED   17634100
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 1446)
  AUTHORS   Asai-Coakwell,M., French,C.R., Berry,K.M., Ye,M., Koss,R.,
            Somerville,M., Mueller,R., van Heyningen,V., Waskiewicz,A.J. and
            Lehmann,O.J.
  TITLE     GDF6, a novel locus for a spectrum of ocular developmental
            anomalies
  JOURNAL   Am J Hum Genet 80 (2), 306-315 (2007)
   PUBMED   17236135
REFERENCE   10 (bases 1 to 1446)
  AUTHORS   Adamska,M., Wolff,A., Kreusler,M., Wittbrodt,J., Braun,T. and
            Bober,E.
  TITLE     Five Nkx5 genes show differential expression patterns in anlagen of
            sensory organs in medaka: insight into the evolution of the gene
            family
  JOURNAL   Dev Genes Evol 211 (7), 338-349 (2001)
   PUBMED   11466530
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC122454.1.
            
            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 :: BC122454.1, CN502217.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505373, SAMEA3505388
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1446
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="1"
                     /map="1"
     gene            1..1446
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /note="H6 family homeobox 4"
                     /db_xref="GeneID:751654"
                     /db_xref="ZFIN:ZDB-GENE-060825-142"
     exon            1..282
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    27..29
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /note="upstream in-frame stop codon"
     CDS             78..794
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /note="homeobox transcription factor; hmx3b; zfSOHo"
                     /codon_start=1
                     /product="H6 family homeobox 4"
                     /protein_id="NP_001038836.2"
                     /db_xref="GeneID:751654"
                     /db_xref="ZFIN:ZDB-GENE-060825-142"
                     /translation="

MSKEDASCRPASLKFTIDNILNSKTSSRNFDSCHSRASLVVCRDGCLHHPGESEDPCKEGSDARLHGIDKLNREGDATVDALKAVDMRSESADSCDDAQQKNNGKKNKLMTKKKTRTIFSKRQIFQLESTFDMKRYLSSAERACLANSLQLTETQVKIWFQNRRNKLKRQLSTELEGPNSEFGDIGKTVPLPALYKENNLLGRCMLPMPLPVVYPGGSAPYFYFSNASKYFSLFDGDI"

     misc_feature    420..584
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            283..1420
                     /gene="hmx4"
                     /gene_synonym="Hmx1; soho; wu:fc21b03; zgc:154104"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gttcggagaatcgagacgctagtttatgaaacgggggaaaaagaggcacagacacggacccgcatctaacggagaatatgagcaaggaggacgcgtcatgtcgacccgcttctttgaagttcaccattgacaatatcctcaactccaagacgagcagcagaaactttgacagctgtcattcaagggcatcgctcgtggtgtgtcgggatggctgtcttcatcaccccggagagagcgaggatccatgtaaagaagggtcagatgcaagattgcatggcattgataaactcaacagagagggggatgcgactgtggacgcgctcaaagccgtcgacatgcgcagcgagagcgcggacagctgcgacgacgcgcagcaaaagaacaacggcaagaagaataaactgatgacgaagaagaaaacgcgcactatattttcaaaaagacagatcttccaactggaatctacgtttgacatgaagcgctacctgagcagcgcggagcgcgcgtgcttggcgaactccttgcagcttaccgagactcaagtcaaaatctggtttcagaatcgacggaataaattaaaaagacaactgtctactgaacttgaaggaccgaacagcgagttcggtgatattggaaagacggtgccgcttccagctttatataaagagaataatctgctcggaaggtgcatgcttccaatgcctttaccagtcgtgtatcctggaggtagcgcgccttacttttatttctcaaatgccagcaagtatttcagcctgtttgatggagatatatgacttagtaaagatcctctcacaggggacaccgtttccttagctctcataacaaaatcgacaacacgacccaactcaaattttaataagcattatcacccttttgtgtgttttgctgagaacatcgttgagctatcggtcagtaaaaaagctggcttgtatttctatgcaaaacttattttatttattctatgctgtacaaaattttatatataaaacaagaacacatagcatattatacccaggcaaccccgtcatacagtgcatcacagtgagcagccatactggcagaaatgccacagccaatcatcccgtcttcacatggaagaaagttttaacagatgttttgctgtttacattattattattttttacatatccgctaaagattttcgatgcatgcatttgtatttttaaatggccctcttttttcaaaatgagcaattaaacctatttaagtgaatgtattggttattttacatctaacgcatgtttgtatgtttataccttttagattttatcgttttaattccttttcagcataacctggccgattattaggctaccagtatttacatcatttatcgagtgtcattaaatattctgttttacactttcttcaaacgaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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