LOCUS       NM_131783               1635 bp    mRNA    linear   VRT 16-SEP-2024
DEFINITION  Danio rerio SIX homeobox 2a (six2a), mRNA.
ACCESSION   NM_131783
VERSION     NM_131783.2
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 1635)
  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    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1635)
  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   3  (bases 1 to 1635)
  AUTHORS   Ellingsen,S., Narawane,S., Fjose,A., Verri,T. and Ronnestad,I.
  TITLE     The zebrafish cationic amino acid
            transporter/glycoprotein-associated family: sequence and
            spatiotemporal distribution during development of the transport
            system b0,+ (slc3a1/slc7a9)
  JOURNAL   Fish Physiol Biochem 47 (5), 1507-1525 (2021)
   PUBMED   34338990
REFERENCE   4  (bases 1 to 1635)
  AUTHORS   Tang,Q., Iyer,S., Lobbardi,R., Moore,J.C., Chen,H., Lareau,C.,
            Hebert,C., Shaw,M.L., Neftel,C., Suva,M.L., Ceol,C.J., Bernards,A.,
            Aryee,M., Pinello,L., Drummond,I.A. and Langenau,D.M.
  TITLE     Dissecting hematopoietic and renal cell heterogeneity in adult
            zebrafish at single-cell resolution using RNA sequencing
  JOURNAL   J Exp Med 214 (10), 2875-2887 (2017)
   PUBMED   28878000
REFERENCE   5  (bases 1 to 1635)
  AUTHORS   Pasquier,J., Cabau,C., Nguyen,T., Jouanno,E., Severac,D.,
            Braasch,I., Journot,L., Pontarotti,P., Klopp,C., Postlethwait,J.H.,
            Guiguen,Y. and Bobe,J.
  TITLE     Gene evolution and gene expression after whole genome duplication
            in fish: the PhyloFish database
  JOURNAL   BMC Genomics 17, 368 (2016)
   PUBMED   27189481
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1635)
  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   7  (bases 1 to 1635)
  AUTHORS   Gomez-Marin,C., Tena,J.J., Acemel,R.D., Lopez-Mayorga,M.,
            Naranjo,S., de la Calle-Mustienes,E., Maeso,I., Beccari,L.,
            Aneas,I., Vielmas,E., Bovolenta,P., Nobrega,M.A., Carvajal,J. and
            Gomez-Skarmeta,J.L.
  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
REFERENCE   8  (bases 1 to 1635)
  AUTHORS   Zhang,H., Wang,X., Lyu,K., Gao,S., Wang,G., Fan,C., Zhang,X.A. and
            Yan,J.
  TITLE     Time point-based integrative analyses of deep-transcriptome
            identify four signal pathways in blastemal regeneration of
            zebrafish lower jaw
  JOURNAL   Stem Cells 33 (3), 806-818 (2015)
   PUBMED   25420467
REFERENCE   9  (bases 1 to 1635)
  AUTHORS   Bessarab,D.A., Chong,S.W., Srinivas,B.P. and Korzh,V.
  TITLE     Six1a is required for the onset of fast muscle differentiation in
            zebrafish
  JOURNAL   Dev Biol 323 (2), 216-228 (2008)
   PUBMED   18789916
REFERENCE   10 (bases 1 to 1635)
  AUTHORS   Weber,S., Taylor,J.C., Winyard,P., Baker,K.F., Sullivan-Brown,J.,
            Schild,R., Knuppel,T., Zurowska,A.M., Caldas-Alfonso,A., Litwin,M.,
            Emre,S., Ghiggeri,G.M., Bakkaloglu,A., Mehls,O., Antignac,C.,
            Network,E., Schaefer,F. and Burdine,R.D.
  TITLE     SIX2 and BMP4 mutations associate with anomalous kidney development
  JOURNAL   J Am Soc Nephrol 19 (5), 891-903 (2008)
   PUBMED   18305125
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC079528.1.
            
            On Oct 17, 2004 this sequence version replaced NM_131783.1.
            
            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 :: BC079528.1, EH581260.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1635
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="13"
                     /map="13"
     gene            1..1635
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /note="SIX homeobox 2a"
                     /db_xref="GeneID:83415"
                     /db_xref="ZFIN:ZDB-GENE-010412-1"
     exon            1..813
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    209..211
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /note="upstream in-frame stop codon"
     CDS             254..1120
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /note="sine oculis homeobox homolog 2.1; sine
                     oculis-related homeobox 2a"
                     /codon_start=1
                     /product="homeobox protein SIX2a"
                     /protein_id="NP_571858.1"
                     /db_xref="GeneID:83415"
                     /db_xref="ZFIN:ZDB-GENE-010412-1"
                     /translation="

MSMLPTFGFTQEQVACVCEVLQQGGNIERLGRFLWSLPACEHLHKNESVLKAKAVVAFHRGNFRELYKILESHQFSPHNHPKLQQLWLKAHYIEAEKLRGRPLGAVGKYRVRRKFPLPRSIWDGEETSYCFKEKSRSVLREWYTHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEAKERENNENSNTNSHNPLTSSMNGNKTILGSSDDDKTPSGTPDHTSSSPALLLTSNSGLQSLHGLAPPPGPSAIPVPSVDSVHHHHSLHDTILNPMSSNLVDLGS"

     misc_feature    278..607
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    638..793
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /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(641..643,761..763,770..775,782..784)
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            814..1611
                     /gene="six2a"
                     /gene_synonym="six2.1; wu:fj04e08; zgc:91945"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gagagactcgcgcaggaggaacaactttctctcgtctgctatagatggatatacggtgtgcattatgcttgtttgaacggatctaaagttttgtgcctctcttcacccggtgggatttgattccatctactcaagaagtctttctaaatgtttgcctcccaagggttactttaaatctctttaaggacagtccaagtcatcgcttagatagacatacaagtacaaagagggacgtttatttttgagacaaaccatgtctatgcttccaacattcggctttacgcaagagcaagtggcgtgcgtctgcgaggttcttcagcagggtggaaacattgaacgtctcggccgctttttgtggtctctaccggcttgcgaacatctccacaagaacgagagtgtgctcaaagcgaaggctgtggtcgcatttcatagggggaatttcagagagctttataagattctcgaaagccaccagttctccccgcacaaccatccgaagttgcagcagctgtggctcaaagcgcattatatcgaggctgagaagctccggggccgccctcttggggctgttgggaagtaccgcgtccgaagaaagtttccgctaccccgctccatttgggacggcgaggagacaagttactgctttaaagaaaagagcaggagcgtgctgcgggaatggtatacccataacccctacccttccccgcgggagaaaagggaactagctgaggcaactgggctaacaacgacacaagtcagtaactggtttaaaaacagacgacaacgcgaccgagcagcggaggcgaaggagagggagaataatgagaactcgaacacaaacagtcacaacccattaacgtcctccatgaatggaaataagactattttaggaagctcggacgacgacaaaacaccgtctggtactcctgatcacacctcgtcgagcccggctttgctcctcacgtcgaactccgggcttcagtccctgcacggcctcgcacctccacctggtcccagcgccatcccagtgcctagtgttgattccgtgcatcaccaccattcattacacgacactatactgaaccctatgtcatcaaacttggtcgaccttggctcttaaacgtggaccctttcaaaaggacgcttgtacgtgaacgtttagcataaatcatcgcgagatgcgtataaacacaaacaaatgagacaaggaatggacaaagaaagttggggatgtttgtcggctgacctacttgcaaagctgatatggagggccttgatagaggtatttttctggaatgtaatgtcctcgaggtgtttaaaaaaaactaataaacgtcttaattgttgatataaacattatttgatatcgttattattttagattgcaattgacccaggactcctcagtcgcatactcctattatttacatttatccttttaaaaaggcagcatcgtttatttttattgggatttcattttaataccaaaacagcatttttaacgactatgggcatctcttcatttttatttgtattttacttttggaaagcgactgcatgtaacctttgggatcaataaacagtaaatgcatttactgagcaaaacaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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