LOCUS       NM_001320052            4523 bp    mRNA    linear   VRT 03-APR-2024
DEFINITION  Danio rerio SEBOX homeobox (sebox), mRNA.
ACCESSION   NM_001320052
VERSION     NM_001320052.1
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 4523)
  AUTHORS   Wang,B., Rong,X., Zhou,Y., Liu,Y., Sun,J., Zhao,B., Deng,B., Lu,L.,
            Lu,L., Li,Y. and Zhou,J.
  TITLE     Eukaryotic initiation factor 4A3 inhibits Wnt/beta-catenin
            signaling and regulates axis formation in zebrafish embryos
  JOURNAL   Development 148 (9) (2021)
   PUBMED   33914867
REFERENCE   2  (bases 1 to 4523)
  AUTHORS   Prummel,K.D., Hess,C., Nieuwenhuize,S., Parker,H.J., Rogers,K.W.,
            Kozmikova,I., Racioppi,C., Brombacher,E.C., Czarkwiani,A.,
            Knapp,D., Burger,S., Chiavacci,E., Shah,G., Burger,A., Huisken,J.,
            Yun,M.H., Christiaen,L., Kozmik,Z., Muller,P., Bronner,M.,
            Krumlauf,R. and Mosimann,C.
  TITLE     A conserved regulatory program initiates lateral plate mesoderm
            emergence across chordates
  JOURNAL   Nat Commun 10 (1), 3857 (2019)
   PUBMED   31451684
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4523)
  AUTHORS   Vopalensky,P., Pralow,S. and Vastenhouw,N.L.
  TITLE     Reduced expression of the Nodal co-receptor Oep causes loss of
            mesendodermal competence in zebrafish
  JOURNAL   Development 145 (5) (2018)
   PUBMED   29440298
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4523)
  AUTHORS   Chen,G., Tan,R. and Tao,Q.
  TITLE     Sebox regulates mesoderm formation in early amphibian embryos
  JOURNAL   Dev Dyn 244 (11), 1415-1426 (2015)
   PUBMED   26285158
REFERENCE   5  (bases 1 to 4523)
  AUTHORS   Satija,R., Farrell,J.A., Gennert,D., Schier,A.F. and Regev,A.
  TITLE     Spatial reconstruction of single-cell gene expression data
  JOURNAL   Nat Biotechnol 33 (5), 495-502 (2015)
   PUBMED   25867923
REFERENCE   6  (bases 1 to 4523)
  AUTHORS   Fukuda,K. and Kikuchi,Y.
  TITLE     Endoderm development in vertebrates: fate mapping, induction and
            regional specification
  JOURNAL   Dev Growth Differ 47 (6), 343-355 (2005)
   PUBMED   16109032
  REMARK    Review article
REFERENCE   7  (bases 1 to 4523)
  AUTHORS   Tsai,W.B., Zhang,X., Sharma,D., Wu,W. and Kinsey,W.H.
  TITLE     Role of Yes kinase during early zebrafish development
  JOURNAL   Dev Biol 277 (1), 129-141 (2005)
   PUBMED   15572145
REFERENCE   8  (bases 1 to 4523)
  AUTHORS   Lunde,K., Belting,H.G. and Driever,W.
  TITLE     Zebrafish pou5f1/pou2, homolog of mammalian Oct4, functions in the
            endoderm specification cascade
  JOURNAL   Curr Biol 14 (1), 48-55 (2004)
   PUBMED   14711414
REFERENCE   9  (bases 1 to 4523)
  AUTHORS   Reim,G., Mizoguchi,T., Stainier,D.Y., Kikuchi,Y. and Brand,M.
  TITLE     The POU domain protein spg (pou2/Oct4) is essential for endoderm
            formation in cooperation with the HMG domain protein casanova
  JOURNAL   Dev Cell 6 (1), 91-101 (2004)
   PUBMED   14723850
REFERENCE   10 (bases 1 to 4523)
  AUTHORS   Kunwar,P.S., Zimmerman,S., Bennett,J.T., Chen,Y., Whitman,M. and
            Schier,A.F.
  TITLE     Mixer/Bon and FoxH1/Sur have overlapping and divergent roles in
            Nodal signaling and mesendoderm induction
  JOURNAL   Development 130 (23), 5589-5599 (2003)
   PUBMED   14522874
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX957226.10.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on transcript alignments.
            
            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 :: AF466189.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA4476729, SAMEA4476743
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-187               BX957226.10        27799-27985         c
            188-390             BX957226.10        24528-24730         c
            391-474             BX957226.10        21668-21751         c
            475-4523            BX957226.10        17452-21500         c
FEATURES             Location/Qualifiers
     source          1..4523
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="5"
                     /map="5"
     gene            1..4523
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="SEBOX homeobox"
                     /db_xref="GeneID:282666"
                     /db_xref="ZFIN:ZDB-GENE-021206-4"
     exon            1..187
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    22..24
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="upstream_AUG_codon; putative N-terminal extension:
                     MRTTALYNFKLVHFFPRIWT"
     CDS             82..963
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="homeobox OG-9; homeobox transcription factor mezzo;
                     skin-, embryo-, brain- and oocyte-specific homeobox; OG9
                     homeobox"
                     /codon_start=1
                     /product="homeobox protein SEBOX"
                     /protein_id="NP_001306981.1"
                     /db_xref="GeneID:282666"
                     /db_xref="ZFIN:ZDB-GENE-021206-4"
                     /translation="

MALFYDQSFDLGLVQKINMETESDFIFNTNMLQFTDVTTKHMLSSPELDRTGHVEGQRKRKRTIFSRAQLSELERAFMITPYPDITLRERLAALTLLPESKIQVWFQNRRARSMKSKKLITPVSRRSPAKDCTFPATHPDLNLEQSPEANKSLRHHQQSLIRQALNPWPQNRPPISPDLPEILQWANRNSETPGDSSFSSCPSERIQHPFPNQSSSVWQMNCFAAHPEGLKSYCTTSQALYSSVSVDQMIPAHPSSLEEALQRQALTHYPQTSLGDISDLIYKAAVVTNLEEC"

     misc_feature    118..558
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    256..417
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    430..513
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /note="propagated from UniProtKB/Swiss-Prot (Q8JJ26.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            188..390
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /inference="alignment:Splign:2.1.0"
     exon            391..474
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /inference="alignment:Splign:2.1.0"
     exon            475..4523
                     /gene="sebox"
                     /gene_synonym="og9x"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gttgaatgtggaaaggattggatgcggacgactgcgctttataactttaaacttgttcattttttccccagaatctggactatggcgctattttatgaccagtcgtttgatttaggcctagttcagaaaattaacatggagacagaaagtgattttattttcaacacaaatatgcttcagtttacagatgtgacaaccaagcacatgctgtcctctcctgaacttgacagaacaggccacgttgagggtcagagaaaaagaaagagaacgattttcagccgagctcagttgtcagaactggagcgcgcattcatgatcacaccgtatccagacatcacactgcgagaaagactagccgcgctcacgctgcttccagagagcaagattcaggtatggttccaaaacagacgagctcgcagtatgaaaagcaagaaactgattacaccagtcagcaggaggagtccagccaaagactgtacttttccagcaacccatcctgatttaaacctcgaacaaagcccagaggccaacaaaagcttgcgtcatcatcagcaaagccttattagacaggctctgaatccctggccacaaaatcgtccgcccatttctccagacctaccagaaatcctgcaatgggcaaacagaaactctgaaacacccggagattcgtctttctccagctgcccatcggaaaggatccaacatccgtttccgaaccagtccagcagtgtttggcagatgaactgctttgccgctcaccctgaaggcttgaagtcttactgtactactagtcaggctttgtattcctccgtgtctgtggatcaaatgattcctgcacatccaagcagtttggaggaagctctgcaaagacaggctttgacacattatccacagacatcactgggagatatttctgacctcatatataaagcagctgtggtcactaatctggaagagtgctaaacactggagactcttttgtaaaatatgttttctttctagaactgacttaaatctgtagttgtagttgtaacatagtcattgatttacactcaaaacaacataggatatttagaagaaagctgaaaacctgtaaccactgacttccataggatttgtttttcctactatggaactcaatggttacatgttttcagcttttttcataatttactctccctttacttgtttcaaacctgtttgagtttctttcttcttttaaacacaagataagatgtttagaaagaaatctgaaaaccggtaaccattgagttccatagtaggaaaaacaaatactacggaagtcaatggttaccagttttcagctttcttctaactatcttatgttgtgttcaacagaatacagaaactcataaaggtttgaaaccacacgagggagactaaatgcacccagcattttcattttggggtgaaaaaaatgtgtctttaagggagatttcacaccaaaacaaacattctgtcataatttactctccctttacttgtttcaaagctgtttgagtttctttcctctgttaaacacaacataagatgtttagaaagaaatctgaaaacctgtaaccattgacttccatagtttgaagaacaaatactacagaagtcaatggttacaggttttcagctttcttctaacttatgctgttcaacaaatgtctctttaaagggagatttcaccccaaaacgaaaattctgtcataatttactctcccttgtttcaaaactgtttgagtttctttcctctgttaaacacaacataagatatttaaaagaaatctggaaacctgtaaccattgacttccatagtatttgttttttctactatggaagtcaatcgttacttgtttttttagcattctttacatgatcgtattttgttttcaattgaaaaaaagaaactcatgaaggtttagaagcacatgagggagactgaatagtaaggaaattttaattttggggtgaaaatgtctctttaaagggagatttcacaccacaataaaaattctgtcataatttaatctccctttacttgtttcagacctgtttgagtttctttcttctgttgaacgcaacatagttaggagaaatctgaaaacctgtaaccattgatttccacagtgtttgtttttcttactatgaaagtcaatggttaccggttttcagatttctttctaaatagcttatgtcatgttcaaccgaaaaaggaaactcaaacaggtttaaaacatgtaaagggagtataaattatgacagaagtttcatttcaaaatgaaaactgactcactatttatttattattctgttgaacacagacaaaaaggtttgaaaccacatgagagagtaaataataagtcaattttcattttagggtgaaaatgtctctttaagaggagatttcacatcaaaacgaaaattctgtcataattaatactccatttacttgtttcaaaccggtttgagtatcgacacagcataagaaatttagaagaaatctggagacctgtaactattgacttccatagagtttgtttttcttactatggaagtcaatggttactggttttcagctttcttctaactatcttatgttgtattcgaataaagaatctcatgaaggtttgaaaccacatgacggagactaaacagtgagtaaaatttcattttggggtgaaaaaaaagtgtctttaaaggagatttcacaacaacaacaaaatctgtcataaattacactcccttaataaacctttttgagtttaaacacaggataagatatttagaggaaatctgaaaacctgtaaccattgacttttatagtatttgttgttcctacagaagtcaatagttacaggttttcagctttaaaatatgctgagttgaaactctaacaaaaatgcaatttaaatggaataaataaactaaatcaaataataagtagatagtgagtacattttcatttttaattgtccaagaatgtctttttaaagggacatttcaccccaaaatgatttttttaggtggttctaaacctttatgaatctctttcgtctgttgaacacaaaagaagctattttgaggaatgttgaacatccatagcaagaacaaaaatactataaaagtcagtggctgtttattttcacaacattcttcagcatatcttccctcgagtccaacagatattcaaacaataaatgaggacagaattgtcatgtttgggtgaactatccctttaatatcagccaactttaccaacatacagtagctagttagtatgtagtttactaatgggacacgttttgtcccattttttattttactattctgttaactgcaaatgtacaaacgtagttttagtatcttccaacatatatttagggatgattgttgatattattgtgaaacagtttgctgacagcactcttaaaaggcctgacaatttagtaaattccctgtcatttattattttttacattcattcattttccttcagcttagtcccttatttatcaggggttgccacagcggaatgaatcggcaactattccagcatatgttttacacagcggatgcccagctgcaaccctgtggatatttattttaaaattacatgttttttagtatgtttcctctttattctcttttctcaggatgttcgtacgctgtgtattgatttctgtgtaaataaatctcttgtttatttatttattaacattcacctttaacaaattaaaggtatctttgtcatacaaacatgtttatgtgtggtgttgtgctcaaagctgcagcaaaataatagtttcccctcaacaatcttcagtatatcttccgttgagtccatcagatactcaaacaataaatgaggacagaattgtcatgtttgggtgaactatccctttaatatcagccaactttacctgcatacagtagctagttagtatgtagtttactaatgggacaaggttcctccaattttttttttttagtattctgttaactcctaatgcaaaaacgtagttttagtatcttccaacatatatttagggatgattattatatataatattataataactataatattattgtgaaacagtttgccgacagaactcttaaggcctgacaattttgcaaattccctgtcatttattattttttacattcattcattttccttcattttagtcccttattcatcaggggttgccacagcggaatgaaccgacaactattctggcatatgttttacagcggatgactttccagcttcaaccctggggatatttattaaaatatttacatttttattctctttcctcaggatgttcgtacgctgtgtattgatttctgtgtaaataaatctcttgtttattaatttattaccattcacctttaacaaatgaaagtatctttgtcatacaaacatgtttatgtgtggtgttgtgctcaaagctgcagcaaaataacatttctttgttttgctaaataaatttttttacattgttgtaaac

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