LOCUS       NM_011384               4019 bp    mRNA    linear   ROD 27-APR-2025
DEFINITION  Mus musculus sine oculis-related homeobox 6 (Six6), mRNA.
ACCESSION   NM_011384
VERSION     NM_011384.5
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4019)
  AUTHORS   Ferrena,A., Zhang,X., Shrestha,R., Zheng,D. and Liu,W.
  TITLE     Six3 and Six6 jointly control diverse target genes in multiple cell
            populations over developmental trajectories of mouse embryonic
            retinal progenitor cells
  JOURNAL   PLoS One 19 (10), e0308839 (2024)
   PUBMED   39446806
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4019)
  AUTHORS   Yu,H., Chiang,A., Rubinstein,M. and Low,M.J.
  TITLE     The homeodomain transcription factor Six3 regulates hypothalamic
            Pomc expression and its absence from POMC neurons induces
            hyperphagia and mild obesity in male mice
  JOURNAL   Mol Metab 87, 101993 (2024)
   PUBMED   39025297
REFERENCE   3  (bases 1 to 4019)
  AUTHORS   Bando,H., Brinkmeier,M.L., Castinetti,F., Fang,Q., Lee,M.S.,
            Saveanu,A., Albarel,F., Dupuis,C., Brue,T. and Camper,S.A.
  TITLE     Heterozygous variants in SIX3 and POU1F1 cause pituitary hormone
            deficiency in mouse and man
  JOURNAL   Hum Mol Genet 32 (3), 367-385 (2023)
   PUBMED   35951005
REFERENCE   4  (bases 1 to 4019)
  AUTHORS   Yu,H., Rubinstein,M. and Low,M.J.
  TITLE     Developmental single-cell transcriptomics of hypothalamic POMC
            neurons reveal the genetic trajectories of multiple
            neuropeptidergic phenotypes
  JOURNAL   Elife 11, e72883 (2022)
   PUBMED   35044906
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4019)
  AUTHORS   Cheng,A.H., Fung,S.W., Hegazi,S., Abdalla,O.H.M.H. and Cheng,H.M.
  TITLE     SOX2 Regulates Neuronal Differentiation of the Suprachiasmatic
            Nucleus
  JOURNAL   Int J Mol Sci 23 (1), 229 (2021)
   PUBMED   35008655
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4019)
  AUTHORS   Mui,S.H., Hindges,R., O'Leary,D.D., Lemke,G. and Bertuzzi,S.
  TITLE     The homeodomain protein Vax2 patterns the dorsoventral and
            nasotemporal axes of the eye
  JOURNAL   Development 129 (3), 797-804 (2002)
   PUBMED   11830578
REFERENCE   7  (bases 1 to 4019)
  AUTHORS   Jean,D., Bernier,G. and Gruss,P.
  TITLE     Six6 (Optx2) is a novel murine Six3-related homeobox gene that
            demarcates the presumptive pituitary/hypothalamic axis and the
            ventral optic stalk
  JOURNAL   Mech Dev 84 (1-2), 31-40 (1999)
   PUBMED   10473118
REFERENCE   8  (bases 1 to 4019)
  AUTHORS   Toy,J. and Sundin,O.H.
  TITLE     Expression of the optx2 homeobox gene during mouse development
  JOURNAL   Mech Dev 83 (1-2), 183-186 (1999)
   PUBMED   10381579
REFERENCE   9  (bases 1 to 4019)
  AUTHORS   Lopez-Rios,J., Gallardo,M.E., Rodriguez de Cordoba,S. and
            Bovolenta,P.
  TITLE     Six9 (Optx2), a new member of the six gene family of transcription
            factors, is expressed at early stages of vertebrate ocular and
            pituitary development
  JOURNAL   Mech Dev 83 (1-2), 155-159 (1999)
   PUBMED   10381575
REFERENCE   10 (bases 1 to 4019)
  AUTHORS   Toy,J., Yang,J.M., Leppert,G.S. and Sundin,O.H.
  TITLE     The optx2 homeobox gene is expressed in early precursors of the eye
            and activates retina-specific genes
  JOURNAL   Proc Natl Acad Sci U S A 95 (18), 10643-10648 (1998)
   PUBMED   9724757
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC159823.2 and AK029309.1.
            
            On Sep 15, 2015 this sequence version replaced NM_011384.4.
            
            Summary: This gene encodes a homeobox protein that is similar to
            the Drosophila 'sine oculis' gene product. This gene is found in a
            cluster of related genes on chromosome 12 and is thought to be
            involved in eye development. The encoded transcription factor
            regulates early progenitor cell proliferation during mammalian
            retinogenesis and pituitary development. Mice lacking this gene
            exhibit abnormal development of the suprachiasmatic nucleus and
            circadian rhythms. [provided by RefSeq, Sep 2015].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data 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 :: AK029309.1, BC138839.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-63                AC159823.2         70372-70434
            64-1268             AK029309.1         2-1206
            1269-3988           AC159823.2         72639-75358
            3989-4019           AK029309.1         3927-3957
FEATURES             Location/Qualifiers
     source          1..4019
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 30.31 cM"
     gene            1..4019
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="sine oculis-related homeobox 6"
                     /db_xref="GeneID:20476"
                     /db_xref="MGI:MGI:1341840"
     exon            1..746
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    34..36
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="upstream in-frame stop codon"
     CDS             175..915
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="optic homeobox 2; sine oculis homeobox homolog 6;
                     sine oculis-related homeobox 6 homolog"
                     /codon_start=1
                     /product="homeobox protein SIX6"
                     /protein_id="NP_035514.1"
                     /db_xref="CCDS:CCDS25972.1"
                     /db_xref="GeneID:20476"
                     /db_xref="MGI:MGI:1341840"
                     /translation="

MFQLPILNFSPQQVAGVCETLEESGDVERLGRFLWSLPVAPAACEALNKNESVLRARAIVAFHGGNYRELYHILENHKFTKESHAKLQALWLEAHYQEAEKLRGRPLGPVDKYRVRKKFPLPRTIWDGEQKTHCFKERTRHLLREWYLQDPYPNPSKKRELAQATGLTPTQVGNWFKNRRQRDRAAAAKNRLQQQVLSQGPGRVLRSEGEGTPEVLGVASSPAASLSSKAATSAISITSSDSECDI"

     misc_feature    199..540
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    562..708
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /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(565..567,574..576,694..696,703..708)
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    742..912
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9QZ28.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    808..810
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Phosphothreonine.
                     /evidence=ECO:0000250|UniProtKB:O95475; propagated from
                     UniProtKB/Swiss-Prot (Q9QZ28.2); phosphorylation site"
     misc_feature    835..837
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:O95475; propagated from
                     UniProtKB/Swiss-Prot (Q9QZ28.2); phosphorylation site"
     misc_feature    847..849
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:O95475; propagated from
                     UniProtKB/Swiss-Prot (Q9QZ28.2); phosphorylation site"
     misc_feature    853..855
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:O95475; propagated from
                     UniProtKB/Swiss-Prot (Q9QZ28.2); phosphorylation site"
     misc_feature    856..858
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:O95475; propagated from
                     UniProtKB/Swiss-Prot (Q9QZ28.2); phosphorylation site"
     exon            747..4019
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1409..1414
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="hexamer: AATAAA"
     polyA_site      1444
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="major polyA site"
     regulatory      3999..4004
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
                     /note="hexamer: AATAAA"
     polyA_site      4019
                     /gene="Six6"
                     /gene_synonym="Optx2; Six9"
ORIGIN      

agtagcggcacggtctagctggctggcttttcctagctgagcaagcgcagccgaacccaacccacagctcttccaggcgggaaggctccccccgactctgtaacccccagccgcaccccgctcggcccgcgggcatctgctgcgtgtcccacccggggcgcccgcgcagcctcgatgttccagctgcccattttgaatttcagcccccagcaagtagccggggtatgtgagaccctggaggaaagcggcgacgtggagcgcctaggtcgcttcctatggtcgctgcccgtggccccagcagcttgtgaagcccttaacaagaatgagtcggtgctgcgagcgagagccatcgtggctttccacggtggcaactaccgcgagctttatcatatcctggaaaatcataagtttactaaggaatcgcacgccaagctgcaggcgctgtggctcgaagcgcattaccaggaggcagagaagctgcgtggacggcccctagggccagtagacaagtaccgagtaaggaagaagttcccgctgccgcggaccatttgggatggcgaacagaagactcactgcttcaaggagcgcacgcggcacctgcttcgagagtggtaccttcaggacccatatcccaaccccagcaaaaagcgagagctcgcccaggcaaccggactgacccccacacaggtgggcaactggttcaaaaaccgcagacaaagagaccgggcagctgcagccaaaaacagactccagcagcaggttctgtcgcagggccccgggcgggtgctacgctcggagggtgagggaacgcctgaggtgttgggcgtcgcctccagcccggctgccagtctgtcgagcaaggcggccacttcggccatctccatcacatccagcgacagtgagtgcgacatctgagctgcccactcatcacacttagaatccagtgtaaaaatgagatacacaaaataaaaaaagagagagaaagagagaggacaagaccagcaaatacggcgctggcagaagccccgtggccagggacccgcgggcctaaaggctctagaagcgagaatccatcgcgactctggggcatgcggtgaggcctgacccaatgctacttctcttcgcattgcttttcctgaaggatctggctgcaaagactcctttggaacagaactgcactctgagagcctgcccttgagtctcctgcgggtatttcacttcgaaaggacgctgttatatatatgtataacttttgctttgaaggtttcttttttaaaaaacaaaacaaaacatatatatgctgtttatttacttatttaaaagacttccatgataggtttctctgtagcttggggaacttgctgttttgaatgagcaagctcacgcgttctgtgtgaagaagccaaataataaaacaacttggtggataacctttcttaattaagagagctgctatctcagattttaaaaatcactcttatttcctttgctgggcacgcagcatggagtcttattcaaattgtctctccaacttctctatatcctctgacatctcagtatatttatattttaagcagccacagataaaccgctaactaaccgccacatcggattgtatgaaaatgtatgcatgtgtatacataaacatatgcacattgccatattaaacccagaatttggaacatgaacatgccatctatggcagcgctctacattcgccacacaggtgatcatggtttgtccacctaatcatttttatgaagtgttagtgattttcaagaacaattttagaagacaaattttagactcaggtaatgaatcgtattttacaaaaatgccaagacacgagggctttatgattaaaaagtgtttccattttgtttgaggtactctcccactcagaaacttatggtcattcaaggtaagcatgtagcacaggtagaatacttactaagtgctgtaggtcttattaagaccatttaaaaagataggagaggttgatactaaccaggctagcatcttcctgcttcagaaatgggttttagtcaactaaattattttcaccaggagaaatactaagataggagacagtatgcaggctttatattgaccagaaagcatgctacagagaaatgacaggcattttctaaatcagtgctctacatttaacatgcaaacaattcatcaggaagttcgttgccttgggactagccttcattaaaatataaaatattcttagcatgtaattgttctttgtacatacacacacatataccacatgcacacatacacacacgtacacactctaccacttttgcactaagaacgtaaataatatccatattatctaagattttgctttgcctagtgaaatggattgcacattacaaattttaatattgatctttaaatctcagccagttagagttcttttaattcacctctcacctgctaaaaatttctgaaggcaaaaaatgttaaagtaccaaacaaatgaaaactggagttatgaaagaaaataggtggtcaagtggctattggaagcccaggacgtgagaaagggctgatgtattacgtgtatgtatgtatgtatgtatgtatgtatgcatgcatgtatgtatatatgtacatttgtatgtatgtatgtatgagtgtgtgtttgaatgtatatatgcatgtatacatatttgtttgtatgtcacttaagcagagttggctactgtgggctttaaaattgtcatcactgagtccacttgttccatagctagaaaattgttgcaaattgaaactctcatagcaaaagatggacaggtttaggaagcttttgtggtcaaacaggtaattcccaagtcaaacaaatactcttcagtggctcaagaaagccttccatggtaaagctatatcttttgatttctaaagtccctgtcgattctttgggtgacaaggagcagtttgggcctccagagggggaaaataaaaggcatcaagaatgcaaatattaagaaattgttcactttcctggtcatgtgagtgacatgtcctagcgacctgaaactgagtatctccttaattttgtgccttggttggtggtggtgactctaactagcagacctctggaggtttggggtcagcctggtctacaaggtgagtttcagaccaaccttggctacacagtgaggttttgttttgttgtttttaaacacagagtgtttcagaaagcaacaccataattgcacccgaggttctcccgcctcacaataggctagaatcagcctagcaggattgcacttcagtggaaaattcatggctctcaatcttataatccagctccatccgaaactcatttcagctatgaatgatccagagccagaaaatggagacatttattggcaaaatttatctcttatctttgtgatcccaggtcaaacagaaaagacagaatgaactaattagtaaaatgatggacaagaatttgagattctaaaaatcctaacatacttgccagtttcaaatgtctgaaacagatggaaacacccaccctctccagaattagagtaaggctgcaggaactaagctttctccgtataaaacaatgtttaatgatacttacggaaaagcagaaggccaaacagtgaaggtttttaaaggagatatactatttccttaaattaacaagctgcccaagaattacgtttaaagtagttataatgcttcaatagcatgcagacttattcatccgatttcatgttgaaatcttggggccaccaacattgtttgaagaatgcttttgtatgtttacctgaaatctgatgacacgtaattgctttgtgactaatacttggaatgaccctaggttggaaattagcccagatcttcaaacagcaatttactcaatcacccgaatcagcccataaacatgtgttataaagattttacatttttatatcaattttatcctgacctagactgcgttaaattcgaggcagtggaaaggctccaataaaagtctctgaatcgcg

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