LOCUS       NM_001128734             966 bp    mRNA    linear   VRT 16-SEP-2024
DEFINITION  Danio rerio SIX homeobox 2b (six2b), mRNA.
ACCESSION   NM_001128734 XM_689724
VERSION     NM_001128734.1
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 966)
  AUTHORS   Belcher B, Vestal J, Lane S, Kell M, Smith L and Camarata T.
  TITLE     The zebrafish paralog six2b is required for early proximal
            pronephros morphogenesis
  JOURNAL   Sci Rep 13 (1), 19699 (2023)
   PUBMED   37952044
  REMARK    GeneRIF: The zebrafish paralog six2b is required for early proximal
            pronephros morphogenesis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 966)
  AUTHORS   Fan C, Ouyang Y, Yuan X and Wang J.
  TITLE     An enhancer trap zebrafish line for lateral line development and
            regulation of six2b expression
  JOURNAL   Gene Expr Patterns 43, 119231 (2022)
   PUBMED   34995793
REFERENCE   3  (bases 1 to 966)
  AUTHORS   Song Y, Chen W, Zhu B and Ge W.
  TITLE     Disruption of Epidermal Growth Factor Receptor but Not EGF Blocks
            Follicle Activation in Zebrafish Ovary
  JOURNAL   Front Cell Dev Biol 9, 750888 (2022)
   PUBMED   35111746
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 966)
  AUTHORS   Elkon R, Milon B, Morrison L, Shah M, Vijayakumar S, Racherla M,
            Leitch CC, Silipino L, Hadi S, Weiss-Gayet M, Barras E, Schmid CD,
            Ait-Lounis A, Barnes A, Song Y, Eisenman DJ, Eliyahu E, Frolenkov
            GI, Strome SE, Durand B, Zaghloul NA, Jones SM, Reith W and
            Hertzano R.
  TITLE     RFX transcription factors are essential for hearing in mice
  JOURNAL   Nat Commun 6, 8549 (2015)
   PUBMED   26469318
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 966)
  AUTHORS   Ogawa Y, Shiraki T, Kojima D and Fukada Y.
  TITLE     Homeobox transcription factor Six7 governs expression of green
            opsin genes in zebrafish
  JOURNAL   Proc Biol Sci 282 (1812), 20150659 (2015)
   PUBMED   26180064
REFERENCE   6  (bases 1 to 966)
  AUTHORS   Gomez-Marin C, Tena JJ, Acemel RD, Lopez-Mayorga M, Naranjo S, de
            la Calle-Mustienes E, Maeso I, Beccari L, Aneas I, Vielmas E,
            Bovolenta P, Nobrega MA, Carvajal J and Gomez-Skarmeta JL.
  TITLE     Evolutionary comparison reveals that diverging CTCF sites are
            signatures of ancestral topological associating domains borders
  JOURNAL   Proc Natl Acad Sci U S A 112 (24), 7542-7547 (2015)
   PUBMED   26034287
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC163151.1.
            
            On Jul 31, 2008 this sequence version replaced XM_689724.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC163151.1, EH579624.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505374, SAMEA3505385
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..966
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="12"
                     /map="12"
     gene            1..966
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="SIX homeobox 2b"
                     /db_xref="GeneID:566454"
                     /db_xref="ZFIN:ZDB-GENE-080723-23"
     exon            1..635
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    43..45
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="upstream in-frame stop codon"
     CDS             76..933
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="sine oculis-related homeobox 2b"
                     /codon_start=1
                     /product="homeobox protein SIX2b"
                     /protein_id="NP_001122206.1"
                     /db_xref="GeneID:566454"
                     /db_xref="ZFIN:ZDB-GENE-080723-23"
                     /translation="

MSMPPTFGFTQEQVACVCEVLQQGGSIERLGRFLWSLPACEHLHKNESVLKAKAVVAFHRGNFRELYKVLESHQFSPHNHPKLQQLWLKAHYIEAEKLRGRPLGAVGKYRVRRKFPLPRSIWDGEETSYCFKEKSRCVLKEWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEAKERENEGANPNGHNPLTSHVNENKSLCESSDDDKSPAGTPDHTNMSPAILMPSSSGLPPLHSFAPPPGPSASISDTQSHHHFSMHDGLLNPMTASLVELGS"

     misc_feature    100..429
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    460..615
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="Homeodomain; DNA binding domains involved in the
                     transcriptional regulation of key eukaryotic developmental
                     processes; may bind to DNA as monomers or as homo- and/or
                     heterodimers, in a sequence-specific manner; Region:
                     homeodomain; cd00086"
                     /db_xref="CDD:238039"
     misc_feature    order(463..465,583..585,592..597,604..606)
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            636..966
                     /gene="six2b"
                     /gene_synonym="zgc:195089; zgc:195096"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ttcccaagtggatttcgccttcaaaccaacgttaagagtggataagatacgcacaggacatcgttgcacttagcaatgtctatgccaccaacttttggatttacccaagagcaggttgcctgcgtgtgcgaggtccttcagcaaggtggaagtatcgaacgtcttggacgatttttgtggtctttaccagcttgtgagcaccttcacaaaaacgagagcgtattgaaagcgaaagcagtagtagctttccaccgaggcaacttcagggagctctacaaagtattagagagccaccagttttctccgcacaaccaccctaaacttcaacagctgtggctgaaagctcactatattgaagcggagaaattgcgcggtcgtcctttgggcgcagtgggaaaataccgcgtgcgcagaaaattcccactgcctcgcagcatttgggatggagaggagaccagctactgttttaaggagaagagccggtgtgtgcttaaagagtggtacacccacaacccatacccttccccgagagagaagagagaactggccgaggccacgggtctcaccacgactcaggtcagcaactggttcaagaacagaaggcagagggatcgtgccgctgaagccaaagaaagggaaaacgagggtgcaaatccaaacggtcacaaccccctgacctctcacgtgaacgaaaacaaatctctatgtgaaagttcagatgatgacaaatcccccgcgggaaccccggatcatactaacatgagtccagcgatcctcatgccctccagttcaggtctgccacccctgcacagcttcgctcctccgcccgggcccagcgcctccatcagcgacactcagagccaccaccacttctctatgcacgacggccttctcaaccccatgacggccagcctggtggaacttggatcataaggaatgaaagaaacatttgactttccaacccga

//