LOCUS       NM_131354               3994 bp    mRNA    linear   VRT 26-DEC-2022
DEFINITION  Danio rerio SIX homeobox 7 (six7), mRNA.
ACCESSION   NM_131354 XM_682110
VERSION     NM_131354.2
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 3994)
  AUTHORS   Ogawa Y, Shiraki T, Fukada Y and Kojima D.
  TITLE     Foxq2 determines blue cone identity in zebrafish
  JOURNAL   Sci Adv 7 (41), eabi9784 (2021)
   PUBMED   34613771
REFERENCE   2  (bases 1 to 3994)
  AUTHORS   Coomer CE, Wilson SG, Titialii-Torres KF, Bills JD, Krueger LA,
            Petersen RA, Turnbaugh EM, Janesch EL and Morris AC.
  TITLE     Her9/Hes4 is required for retinal photoreceptor development,
            maintenance, and survival
  JOURNAL   Sci Rep 10 (1), 11316 (2020)
   PUBMED   32647335
  REMARK    Erratum:[Sci Rep. 2020 Sep 4;10(1):14843. PMID: 32884063]
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3994)
  AUTHORS   Mackin RD, Frey RA, Gutierrez C, Farre AA, Kawamura S, Mitchell DM
            and Stenkamp DL.
  TITLE     Endocrine regulation of multichromatic color vision
  JOURNAL   Proc Natl Acad Sci U S A 116 (34), 16882-16891 (2019)
   PUBMED   31383755
REFERENCE   4  (bases 1 to 3994)
  AUTHORS   Ogawa Y, Shiraki T, Asano Y, Muto A, Kawakami K, Suzuki Y, Kojima D
            and Fukada Y.
  TITLE     Six6 and Six7 coordinately regulate expression of middle-wavelength
            opsins in zebrafish
  JOURNAL   Proc Natl Acad Sci U S A 116 (10), 4651-4660 (2019)
   PUBMED   30765521
  REMARK    GeneRIF: Six6b and six7 govern expression of the SWS2 and RH2
            opsins responsible for middle-wavelength sensitivity.
REFERENCE   5  (bases 1 to 3994)
  AUTHORS   Maurer JM and Sagerstrom CG.
  TITLE     A parental requirement for dual-specificity phosphatase 6 in
            zebrafish
  JOURNAL   BMC Dev Biol 18 (1), 6 (2018)
   PUBMED   29544468
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3994)
  AUTHORS   Carlin D, Sepich D, Grover VK, Cooper MK, Solnica-Krezel L and
            Inbal A.
  TITLE     Six3 cooperates with Hedgehog signaling to specify ventral
            telencephalon by promoting early expression of Foxg1a and
            repressing Wnt signaling
  JOURNAL   Development 139 (14), 2614-2624 (2012)
   PUBMED   22736245
  REMARK    GeneRIF: six3b and six7 are required during early segmentation for
            specification of ventral progenitors, similar to the role of
            Hedgehog (Hh) signaling in telencephalon development.
REFERENCE   7  (bases 1 to 3994)
  AUTHORS   Suh CS, Ellingsen S, Austbo L, Zhao XF, Seo HC and Fjose A.
  TITLE     Autoregulatory binding sites in the zebrafish six3a promoter region
            define a new recognition sequence for Six3 proteins
  JOURNAL   FEBS J 277 (7), 1761-1775 (2010)
   PUBMED   20193042
REFERENCE   8  (bases 1 to 3994)
  AUTHORS   Geng X, Speirs C, Lagutin O, Inbal A, Liu W, Solnica-Krezel L,
            Jeong Y, Epstein DJ and Oliver G.
  TITLE     Haploinsufficiency of Six3 fails to activate Sonic hedgehog
            expression in the ventral forebrain and causes holoprosencephaly
  JOURNAL   Dev Cell 15 (2), 236-247 (2008)
   PUBMED   18694563
REFERENCE   9  (bases 1 to 3994)
  AUTHORS   Wilm TP and Solnica-Krezel L.
  TITLE     Essential roles of a zebrafish prdm1/blimp1 homolog in embryo
            patterning and organogenesis
  JOURNAL   Development 132 (2), 393-404 (2005)
   PUBMED   15623803
REFERENCE   10 (bases 1 to 3994)
  AUTHORS   Leung YF and Dowling JE.
  TITLE     Gene expression profiling of zebrafish embryonic retina
  JOURNAL   Zebrafish 2 (4), 269-283 (2005)
   PUBMED   18248185
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC064701.1.
            
            On or before Jul 6, 2005 this sequence version replaced
            XM_682110.1, NM_131354.1.
            
            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 :: AF030282.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505389, SAMEA3505392
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..3994
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="wild-type"
                     /db_xref="taxon:7955"
                     /chromosome="7"
                     /map="7"
     gene            1..3994
                     /gene="six7"
                     /note="SIX homeobox 7"
                     /db_xref="GeneID:30625"
                     /db_xref="ZFIN:ZDB-GENE-990825-28"
     exon            1..456
                     /gene="six7"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    28..30
                     /gene="six7"
                     /note="upstream in-frame stop codon"
     CDS             49..819
                     /gene="six7"
                     /note="sine oculis homeobox homolog 7"
                     /codon_start=1
                     /product="SIX homeobox 7"
                     /protein_id="NP_571429.1"
                     /db_xref="GeneID:30625"
                     /db_xref="ZFIN:ZDB-GENE-990825-28"
                     /translation="

MFPLPMFTPEQVARVCENLEETGDIERLGRFLWSLPAAVPGSAGELLNRHESVMRARALVAFHGGNFEALYQILQSHRFTRESHAKLQDLWLDAHYREAERLRGRPLGPVEKYRIRKKFPLPRTIWDGEQKTHCFKERTRSLLREWYLQDPYPNPSRKRHLAQATGLTPTQVGNWFKNRRQRDRAASAKNRLQQDSSLLPSGSSPECSSSEHNPLLRGSSPRHPDSPGNSDCSSGPRGTGASTPDISVSSDSEFES"

     misc_feature    67..414
                     /gene="six7"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    436..600
                     /gene="six7"
                     /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(436..447,451..453,502..504,520..522,559..561,
                     565..570,577..582,586..594,598..600)
                     /gene="six7"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(439..441,448..450,568..570,577..582,589..591)
                     /gene="six7"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            457..620
                     /gene="six7"
                     /inference="alignment:Splign:2.1.0"
     exon            621..3972
                     /gene="six7"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

tataaacgggcgcgcgagttttcaaattagtcagacaaacctacagccatgtttcctctgccgatgttcacacctgagcaggtggcccgagtgtgcgagaatctcgaggaaacaggagatatcgagcgcctgggccggtttctctggtctctgcccgccgccgtgcccggttccgccggagagttgctcaaccgtcatgagtcggtgatgcgcgcgcgggctctcgtcgcgttccatggcgggaatttcgaggcgctctatcagattctgcagagtcaccggtttacacgcgaatctcacgctaaactgcaggacctgtggctggacgcgcattaccgggaggcggagcgcctgaggggcagaccactcggcccggtagagaagtaccgcatccgtaagaagttccccctgccgaggacaatctgggatggagagcagaagacacactgctttaaggagagaacccgcagtctgctgagggaatggtacctgcaggacccttatccaaacccgtccagaaagcgtcatttggctcaggccactggtctcactcccacacaggtgggcaactggttcaagaacaggagacagcgggacagagcagcttctgccaaaaacagactacagcaggattcctctctcctgccgtctggaagttctcctgaatgttcatcatcggagcacaacccactcctgcgaggctcatccccccgccaccctgacagcccggggaacagcgactgcagctcaggccctcgggggaccggagcttccacaccggacatctcggtcagcagcgacagcgagtttgagtcgtgaacacaggcgcacagacgcttactgatgatgcacttacagcacagactgagaaatcagctggcggactgctggaaaaactcattcaggagaggagttttcattgcaagactgaaacgtgcacttgaaagtgaccagactggacctcacgtgccaaagaaatctcctcagattcactagctatgtttccatcagcgtaaaatacttctctatttgcattataaaaggttatatttcggtttagggagtctccaacaacagtctgatatgcatgcaagatcaaaaaacacgttaattgtcatataatatgcatttatttttaactaattagcccagcgactcccatatgaatcgttcagcaattcattagttcccaaacccctccttagtacgatgctgatctgcggtgattaggccaatgacccagtctattgcgattggttgactcggttcagtgcgagacagagagaaacatccatctatggcgtagcactcagagtatgtgtgagcccaatgcaggaatgcaataaagcaatgcagtcaaacagcagcatatactctactcttaaccctgaccccaagtcagacacaacacagattcagtattaatccacacagtggcaaaagttgaactgttttgaaaacctcaccgcatgtgtaggaacagctgacggtggccatagtaaagacaaccagcagaagatcacaagttcaggaaaaaagcatgcgttgtgctttcaacgtggatttggacgcaatatgtgaacagccccataaagattttacttgagagatacagtacatgcactgctctgtaatgctgcgttcataccagacatggaagaagcgtcaagcgtgagtgatttacatgttaagtcaatgcaaagacgcgaatagagacagtgtcccaggggaaatcctctagccgacaccggccaacagttgatcaaactgggctctgctcagtcagaagcaccgctgaaagcttccatcatccaggttaagtttctgaagaagtttgtaagcttatagagctggtgcacctctgaaaggatctagtgaactctgacacggttccaaacaaatcaacaatgtttttcagtcttcataaagcacataaacactgttattttctcaataaaatccatgttagccatttagcaacaatgctagtgtcactcaacagagtgcccatgtccgcatctattgttcagtgaatttgacatgaagcagattcaatgcgcaaatgaagcgagcaaactcaaaatgttcgtgcatctattttccatatgaagtgcaacagttactgtcgctgatctttcctttaatagcaaacggccaaggaatcccacgttgcagcgtaggttattgtatcagtcatcagaaaaatgacaggagcaaacacagcacatggttggctatactgtggtactgtagtgaaaacagattttaacccttccctgcaaccgaatctccatctgtcagtgatcgttatcttcttgtcatgatcagtcgcgtgatccttatcgctccgctagtgtcagaagggaaaggtgcgttcacgttttactggaacctgtactacatatttggtgatgtaccgtatcaacgacgacacattcaagctaaagatccaaacccaactcgattcattcattcgactatttcgttaaaaaatctatagttttacttagagctgtgttacccactgcacagaagttcattatcaaaaacccttaataggggctctttaatggaaacgccaagatgtgcatacattttataaatacttgagtaggatcaactttattatctttatttattatccaagaagataaaatgtgcataacctacgatggaaagatgtaaattccagcatggtcttcctgaaatccctcagccaaagtccatcatcacagtggttcagtattattgttattctattattattcccttcagaactgtcttgagcatctgtctgtgctcccaaagagcatctcaagcctctaaaagccacagtattgcattcatcatgccttcatcttcatcttctgaggctccactcatttattagagaagaaaaaagcccacggttggcttctcctaatgcacaaagctacattattctgtctgatatttgttaccagtttatcaggaagtgacgattttgttgtctttgactcattagaagaaacgctgttttattcgcaaatgttttatgcgatattacagttttgcgtataaatcttattcacctcttaggatggaaacatagctactggctgtttttaatcacattaatactcaggtggcacaaacatatcataatccaggacgcattatgcaaattttgtatgcaaggccatttgtagcactatgcacatctgccagaagcagaggaacactccggtttgcatgcttaaaaagggacgtgttggaaacagaggctagatgtaacttgctgctgttggttttcataagaatagagcgtagatcaagcgattaagtctgttatttgtttatttttatttgttgtttgtgttgatatgtttccgcctcccactagaatacacagatgtggtctggatgaacataaattaaaggggcagttcacccaaaaatgaaaattgttgaaaaccctgtttgggtttcttaaggatgatatactgaagaaaggttgaaagaaacaaaaacaaaagtcattgactttcatagtattttttgttcctactatggatgtcaattgttgctttttcattcttcagaatatttagttttgtgctcaaaagaaaaaagaaaagtttagagccacttgaatgtgaatgaggaaattgccattttttctctttaaatgacatgttatgggatattaatgctgcttatctggaaaaatactataattcctgcgccaccacacactgttatcgaacaggtttcctcaacacactaatgttttccaaaaaagacacatctttctgtatatttcagctactccagtctgaagtcatttttatgtgcctacactttgaggacgacatggaaacgtctagaatttgtcattttcacacccatattgctcaccattgtcacatgaagaactgtactgtcttgttttcaatgtgattttcaaataaatgaaattatttttgaagcaaaaaaaaaaaaaaaaaaaaaaaaa

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