LOCUS       NM_001044685            1810 bp    mRNA    linear   VRT 24-SEP-2023
DEFINITION  Gallus gallus SIX homeobox 1 (SIX1), mRNA.
ACCESSION   NM_001044685
VERSION     NM_001044685.2
KEYWORDS    RefSeq.
SOURCE      Gallus gallus (chicken)
  ORGANISM  Gallus gallus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
            Phasianidae; Phasianinae; Gallus.
REFERENCE   1  (bases 1 to 1810)
  AUTHORS   Wu Z, Rao Y, Zhang S, Kim EJ, Oki S, Harada H, Cheung M and Jung
            HS.
  TITLE     Cis-control of Six1 expression in neural crest cells during
            craniofacial development
  JOURNAL   Dev Dyn 248 (12), 1264-1272 (2019)
   PUBMED   31464047
  REMARK    GeneRIF: Six1E1 and Six1E2, act synergistically in craniofacial
            development
REFERENCE   2  (bases 1 to 1810)
  AUTHORS   Tang H, Finn RD and Thomas PD.
  TITLE     TreeGrafter: phylogenetic tree-based annotation of proteins with
            Gene Ontology terms and other annotations
  JOURNAL   Bioinformatics 35 (3), 518-520 (2019)
   PUBMED   30032202
REFERENCE   3  (bases 1 to 1810)
  AUTHORS   Sato S, Yajima H, Furuta Y, Ikeda K and Kawakami K.
  TITLE     Activation of Six1 Expression in Vertebrate Sensory Neurons
  JOURNAL   PLoS One 10 (8), e0136666 (2015)
   PUBMED   26313368
  REMARK    GeneRIF: Activation of Six1 Expression in Vertebrate Sensory
            Neurons.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1810)
  AUTHORS   Garcez RC, Le Douarin NM and Creuzet SE.
  TITLE     Combinatorial activity of Six1-2-4 genes in cephalic neural crest
            cells controls craniofacial and brain development
  JOURNAL   Cell Mol Life Sci 71 (11), 2149-2164 (2014)
   PUBMED   24061537
  REMARK    GeneRIF: Combinatorial activity of Six1, Six2, and Six4 genes in
            cephalic neural crest cells controls craniofacial and brain
            development.
REFERENCE   5  (bases 1 to 1810)
  AUTHORS   Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C,
            Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S.
  TITLE     Manual GO annotation of predictive protein signatures: the InterPro
            approach to GO curation
  JOURNAL   Database (Oxford) 2012, bar068 (2012)
   PUBMED   22301074
  REMARK    Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000215.1.
            
            On Dec 1, 2021 this sequence version replaced NM_001044685.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB199734.1, HAEL01012059.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992290, SAMEA103992393
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-727               JAENSK010000215.1  24867039-24867765
            728-1810            JAENSK010000215.1  24868441-24869523
FEATURES             Location/Qualifiers
     source          1..1810
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="5"
                     /map="5"
     gene            1..1810
                     /gene="SIX1"
                     /note="SIX homeobox 1"
                     /db_xref="CGNC:54357"
                     /db_xref="GeneID:693262"
     exon            1..727
                     /gene="SIX1"
                     /inference="alignment:Splign:2.1.0"
     CDS             168..1016
                     /gene="SIX1"
                     /note="sine oculis homeobox homolog 1"
                     /codon_start=1
                     /product="homeobox protein SIX1"
                     /protein_id="NP_001038150.1"
                     /db_xref="CGNC:54357"
                     /db_xref="GeneID:693262"
                     /translation="

MSMLPSFGFTQEQVACVCEVLQQGGNLERLGRFLWSLPACDHLHKNESVLKAKAVVAFHRGNFRELYKILESHQFSPHNHPKLQQLWLKAHYVEAEKLRGRPLGAVGKYRVRRKFPLPRTIWDGEETSYCFKEKSRGVLREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDRAAEAKERENTENNNAATNKPNQLSPLDGSKPLMSSSEEEFSPPQSPDQNSVLLLQGNLAHGRSSAYPLGSLPAPPGTHSLPGHQLQDSLLGPLTSSLVDLGS"

     misc_feature    192..521
                     /gene="SIX1"
                     /note="Transcriptional regulator, SIX1, N-terminal SD
                     domain; Region: SIX1_SD; pfam16878"
                     /db_xref="CDD:465293"
     misc_feature    552..707
                     /gene="SIX1"
                     /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(555..557,675..677,684..689,696..698)
                     /gene="SIX1"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            728..1810
                     /gene="SIX1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

aaagttccccccggcgctccgccgagcatcccccgctccgccgccgcggccgcctccgcgcctccccgctctggggacgggaccgggcccggggctctccccgcccctccgccgcctcccggtgccgcacgcagccccgagccgcccctcggcgcccggccccggccatgtcgatgctgccgtcgttcggcttcacgcaggagcaggtcgcctgcgtgtgcgaggtgctgcagcagggggggaacctggagcgcctgggccgcttcctctggtcgctgccggcgtgcgaccacctgcacaagaacgagagcgtcctcaaggccaaagcggtggtggccttccaccggggcaacttccgcgagctctacaagatcctggagagccaccagttctcgccccacaaccaccccaagctgcagcagctctggctcaaggcgcactacgtggaagccgagaagctgcgcgggcggccgctgggcgccgtgggcaaataccgggtgcgccgaaagttccccctgccccgcaccatctgggacggcgaggagacgagctactgcttcaaggagaagtcgcggggggtgctgcgggagtggtacgcgcacaacccctacccctcgccccgcgagaagcgggagctggccgaggccaccgggctcaccaccacgcaggtcagcaactggttcaagaaccggcggcagcgggaccgggcggcggaggccaaggagagggagaacacggagaacaacaacgcggccaccaacaaacccaaccagctctcccccctggacgggagcaaacccctcatgtccagctccgaggaagaattttcacccccgcagagcccggatcagaactcggtcctcctgttgcaggggaacctcgctcacggcaggagctccgcgtacccgctgggctccctgcccgcccccccgggcacgcacagcctcccgggccatcagctccaggactcgctgctggggccgctcacctccagcctggtggacctgggctcctaaagggagctcgtggacacggactctcggttgtacatagcggacggtgatcctgaacgtgacttcggctcttctccacggtctcagctccaggtccggtccccccccacctcccttctccactgtcgttatttttattattattattattattgttattattatttttcacgtagccaaatgcagagagcggcagaaagccctcggcctttcgagttcaagtgagcgggaattacagcagcagaaatagaaatagaaggggagagggtgggggggaaaaaaacccaaccccgaaccccggatcccattgcgccccataaatcccggctgttgcggcccagaggcagagggagcgcggggccctttgcggcagcgggaggagggaggggaactttttcgtttacatttctttttttttcatatttagcttcaccggaaggatttcgatgtagtttaaaattaaaaaaaaaaaaaaaaaagaggggaaaaaaaaaatagataattaggaagcggcagtctgagtgcctctgtcttaacgcggcggtgctgctccccggccgggacacgcagcgatgcggctgcactttaggacagtaacaacagcgataataaatgcggatggccctttccttccgcaggagcgtctctctctgtctgcctcccccaacccccagctctgcctcgcagtgagcccgcagctgtctgtctcgagtctgtgttaccgacctcgcgtgtgctttcaggtttcttttctattgtacccgaacagccgaaattaaacactgctgatggcagaa

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