LOCUS       NM_131363               1722 bp    mRNA    linear   VRT 07-DEC-2024
DEFINITION  Danio rerio SIX homeobox 3b (six3b), mRNA.
ACCESSION   NM_131363
VERSION     NM_131363.1
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 1722)
  AUTHORS   Umeda,K., Tanaka,K., Chowdhury,G., Nasu,K., Kuroyanagi,Y. and
            Yamasu,K.
  TITLE     Evolutionarily conserved roles of foxg1a in the developing
            subpallium of zebrafish embryos
  JOURNAL   Dev Growth Differ 66 (3), 219-234 (2024)
   PUBMED   38378191
REFERENCE   2  (bases 1 to 1722)
  AUTHORS   Chowdhury,G., Umeda,K., Ohyanagi,T., Nasu,K. and Yamasu,K.
  TITLE     Involvement of nr2f genes in brain regionalization and eye
            development during early zebrafish development
  JOURNAL   Dev Growth Differ 66 (2), 145-160 (2024)
   PUBMED   38263801
REFERENCE   3  (bases 1 to 1722)
  AUTHORS   Leid,J., Gray,R., Rakita,P., Koenig,A.L., Tripathy,R.,
            Fitzpatrick,J.A.J., Kaufman,C., Solnica-Krezel,L. and Lavine,K.J.
  TITLE     Deletion of taf1 and taf5 in zebrafish capitulate cardiac and
            craniofacial abnormalities associated with TAFopathies through
            perturbations in metabolism
  JOURNAL   Biol Open 12 (7) (2023)
   PUBMED   37746814
REFERENCE   4  (bases 1 to 1722)
  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   5  (bases 1 to 1722)
  AUTHORS   Bulk,J., Kyrychenko,V., Rensinghoff,P.M., Ghaderi Ardekani,Z. and
            Heermann,S.
  TITLE     Holoprosencephaly with a Special Form of Anophthalmia Result from
            Experimental Induction of bmp4, Oversaturating BMP Antagonists in
            Zebrafish
  JOURNAL   Int J Mol Sci 24 (9), 8052 (2023)
   PUBMED   37175759
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1722)
  AUTHORS   Kim,S.H., Shin,J., Park,H.C., Yeo,S.Y., Hong,S.K., Han,S., Rhee,M.,
            Kim,C.H., Chitnis,A.B. and Huh,T.L.
  TITLE     Specification of an anterior neuroectoderm patterning by
            Frizzled8a-mediated Wnt8b signalling during late gastrulation in
            zebrafish
  JOURNAL   Development 129 (19), 4443-4455 (2002)
   PUBMED   12223403
REFERENCE   7  (bases 1 to 1722)
  AUTHORS   Imai,Y., Gates,M.A., Melby,A.E., Kimelman,D., Schier,A.F. and
            Talbot,W.S.
  TITLE     The homeobox genes vox and vent are redundant repressors of dorsal
            fates in zebrafish
  JOURNAL   Development 128 (12), 2407-2420 (2001)
   PUBMED   11493559
REFERENCE   8  (bases 1 to 1722)
  AUTHORS   Fekany-Lee,K., Gonzalez,E., Miller-Bertoglio,V. and
            Solnica-Krezel,L.
  TITLE     The homeobox gene bozozok promotes anterior neuroectoderm formation
            in zebrafish through negative regulation of BMP2/4 and Wnt pathways
  JOURNAL   Development 127 (11), 2333-2345 (2000)
   PUBMED   10804176
REFERENCE   9  (bases 1 to 1722)
  AUTHORS   Hashimoto,H., Itoh,M., Yamanaka,Y., Yamashita,S., Shimizu,T.,
            Solnica-Krezel,L., Hibi,M. and Hirano,T.
  TITLE     Zebrafish Dkk1 functions in forebrain specification and axial
            mesendoderm formation
  JOURNAL   Dev Biol 217 (1), 138-152 (2000)
   PUBMED   10625541
REFERENCE   10 (bases 1 to 1722)
  AUTHORS   Kobayashi,M., Toyama,R., Takeda,H., Dawid,I.B. and Kawakami,K.
  TITLE     Overexpression of the forebrain-specific homeobox gene six3 induces
            rostral forebrain enlargement in zebrafish
  JOURNAL   Development 125 (15), 2973-2982 (1998)
   PUBMED   9655819
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AF030281.1.
            
            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 :: AF030281.1, BC059425.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1722
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="12"
                     /map="12"
     gene            1..1722
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /note="SIX homeobox 3b"
                     /db_xref="GeneID:30636"
                     /db_xref="ZFIN:ZDB-GENE-990415-128"
     exon            1..827
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    28..30
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /note="upstream in-frame stop codon"
     CDS             136..1017
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /note="sine oculis homeobox homolog 6; sine oculis
                     homeobox homolog 3b"
                     /codon_start=1
                     /product="homeobox protein SIX3b"
                     /protein_id="NP_571438.1"
                     /db_xref="GeneID:30636"
                     /db_xref="ZFIN:ZDB-GENE-990415-128"
                     /translation="

MVFRSPLELYPSHLFLPNFADRPLLLAGSIPRARSPEDLPMFQLPTLNFSAEQVASVCETLEETGDIERLGRFLWSLPVAPGACDAINKHESIQRARAVVAYHTGSFRELYHILETHKFTKDSHGKLQAMWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHCFKERTRGLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNRLQHHGLGQSSLRSMSESGCTPHSSAESPCAAASPTTSVSSMNERGDGGTILSVTDSDSDFDV"

     misc_feature    280..621
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    643..789
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /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(646..648,655..657,775..777,784..789)
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            828..1694
                     /gene="six3b"
                     /gene_synonym="cb347; SIX3; six3.2; six6"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

aaaatgtttcaccgttgcactctaagttgattaagggtagatattcgcgctcggtggcactgcggcgatagcagcgcaaacacgacgtcgggttttccgtctttccccgtcgttttgtctctgtccggcgactccatggttttcaggtctcctttagagctttatccctcacatcttttcctgcccaatttcgcggatcgccctctgcttctggcgggcagcattcccagagcgaggtccccggaggacttaccgatgtttcagctgcccaccctaaacttctcggcggaacaggtggccagcgtgtgcgagacgctggaggaaaccggggacatcgagaggctcggacgtttcctttggtcgttgcccgtagcacccggagcctgcgatgccatcaacaagcacgagtccatccagcgagcccgagcggtggtcgcgtatcacacgggaagcttccgtgaattataccacatcctggaaacccacaagttcaccaaagactctcatggaaagctgcaagcgatgtggctggaagcgcactaccaagaagcagagaagctgcgcggccgtccccttggacccgttgataaataccgggtccgcaagaagtttcctttgccacggaccatctgggatggcgaacagaagacgcactgtttcaaggaacgaactcgcggtttgttgagggagtggtacctacaggacccttaccccaatccgagcaagaaaagggaactggcacaagccactggactgactcccactcaagtgggcaattggtttaaaaatcgaagacagagggacagggcggcagctgccaaaaacaggcttcagcatcacggactgggccaaagcagtctgcgctccatgtcagaatcgggctgcacaccgcacagctcggcagaatccccgtgcgcggccgccagtcccacgaccagcgtctccagtatgaatgaacgaggcgacggtgggacaattctctcagttacagacagtgactctgatttcgatgtatgatgcaccgtcggacaaatataaaacatttttttgcccagagaaaaatgaacttgtgaaaatgtgggcaacatgggggccggccattttgccagcttgtgttcaacaaaaggagaaaagcatgctgtttttccagcgcttcaacggactgacgcccttacctttttatttccaaggcctatacacgaccattttgcatgttcatttgtgaatattttgcaattttaaaaggcatttatgaagtggagtccgaaaaggtagaactcgatgctcgatgaaatgagtgaaccggagaggcaattttattattttgtgtttatcagacaatcgttgaagtccaaaagcacctttattccccctcgtcttttactcgactggagatgttcatactaattttatctcaagatttatattgaattgtccatgtctgattcaaagttttccttaggtctaggcttgtctagatatgcttgtatatggtatcgcaattacgccactctctttcctgcaaatttctttatgttgtgtccataaagcgtgagtaactgtctgttaagtgcttggagattttaagtgtctattcattctgctcgtttttatactgtaaatgggttaatggcgctgaaaacacagtgttatgggtcacttttatgcaaataaatataatttaatataacgacaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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