LOCUS       NM_001128861            1506 bp    mRNA    linear   INV 29-OCT-2018
DEFINITION  Ciona intestinalis homeobox transcription factor Hox1 (hox1), mRNA.
ACCESSION   NM_001128861
VERSION     NM_001128861.1
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
REFERENCE   1  (bases 1 to 1506)
  AUTHORS   Yoshida K, Nakahata A, Treen N, Sakuma T, Yamamoto T and Sasakura
            Y.
  TITLE     Hox-mediated endodermal identity patterns pharyngeal muscle
            formation in the chordate pharynx
  JOURNAL   Development 144 (9), 1629-1634 (2017)
   PUBMED   28289133
  REMARK    GeneRIF: Hox1 is essential for the establishment of
            Aanterior-posterior axial identity of the endostyle, a major
            structure of the pharyngeal endoderm, in the ascidian Ciona
            intestinalis.
REFERENCE   2  (bases 1 to 1506)
  AUTHORS   Sasakura Y, Kanda M, Ikeda T, Horie T, Kawai N, Ogura Y, Yoshida R,
            Hozumi A, Satoh N and Fujiwara S.
  TITLE     Retinoic acid-driven Hox1 is required in the epidermis for forming
            the otic/atrial placodes during ascidian metamorphosis
  JOURNAL   Development 139 (12), 2156-2160 (2012)
   PUBMED   22573621
  REMARK    GeneRIF: Retinoic acid mediated-Hox1 in the epidermal ectoderm
            played a key role in the acquisition of the otic placode during
            chordate evolution.
REFERENCE   3  (bases 1 to 1506)
  AUTHORS   Kanda M, Wada H and Fujiwara S.
  TITLE     Epidermal expression of Hox1 is directly activated by retinoic acid
            in the Ciona intestinalis embryo
  JOURNAL   Dev. Biol. 335 (2), 454-463 (2009)
   PUBMED   19782671
  REMARK    GeneRIF: results indicate that retinoic acid directly activates the
            epidermal enhancer of Ci-Hox1. This is the first demonstration that
            retinoic acid is necessary for endogenous gene expression in
            ascidian embryos
REFERENCE   4  (bases 1 to 1506)
  AUTHORS   Imai KS, Hino K, Yagi K, Satoh N and Satou Y.
  TITLE     Gene expression profiles of transcription factors and signaling
            molecules in the ascidian embryo: towards a comprehensive
            understanding of gene networks
  JOURNAL   Development 131 (16), 4047-4058 (2004)
   PUBMED   15269171
REFERENCE   5  (bases 1 to 1506)
  AUTHORS   Satou Y and Satoh N.
  TITLE     Genomewide surveys of developmentally relevant genes in Ciona
            intestinalis
  JOURNAL   Dev. Genes Evol. 213 (5-6), 211-212 (2003)
   PUBMED   12736827
REFERENCE   6  (bases 1 to 1506)
  AUTHORS   Spagnuolo A, Ristoratore F, Di Gregorio A, Aniello F, Branno M and
            Di Lauro R.
  TITLE     Unusual number and genomic organization of Hox genes in the
            tunicate Ciona intestinalis
  JOURNAL   Gene 309 (2), 71-79 (2003)
   PUBMED   12758123
REFERENCE   7  (bases 1 to 1506)
  AUTHORS   Satou Y, Yamada L, Mochizuki Y, Takatori N, Kawashima T, Sasaki A,
            Hamaguchi M, Awazu S, Yagi K, Sasakura Y, Nakayama A, Ishikawa H,
            Inaba K and Satoh N.
  TITLE     A cDNA resource from the basal chordate Ciona intestinalis
  JOURNAL   Genesis 33 (4), 153-154 (2002)
   PUBMED   12203911
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AB210490.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB210490.1, AK116194.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN09354757, SAMN09354758
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1506
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
     gene            1..1506
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="homeobox transcription factor Hox1"
                     /db_xref="GeneID:445718"
     misc_feature    49..51
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="upstream in-frame stop codon"
     CDS             100..1197
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /codon_start=1
                     /product="homeobox transcription factor Hox1"
                     /protein_id="NP_001122333.1"
                     /db_xref="GeneID:445718"
                     /translation="

MNSYMKYPVHASNSNSYTNHITPQGPFPTSHANKPTVLPHETSAYGIYRTVESIRNHNESTVTPQNEGSPGRSSRENSPTGPVGTTVHSTDNSPYAYSPACLNYNTSTPYCNQLVGADLNYVHQSYSINESYPTSNPLYTSTFSNNSLYSQYNPCILGPNVSRDETNDSVINSCGVQDRISPPNSAYDTPTASPQCTNTLPSNTYDWMKIKRNPPKSIYFSQNKMVEYTYGVTGNNGRTNFTTKQLTELEKEFHFNKYLTRARRVEIAAALRLNETQVKIWFQNRRMKQKKRDKEAEKLNGNKMSQSKSETLHGLKQTSTSSSTNPMYLASSSSNKSTGVTNYNSLMLSHQFQKPAAEADMNIVT"

     misc_feature    <451..>1080
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="CCR4-NOT transcriptional regulation complex, NOT5
                     subunit [Transcription]; Region: COG5665"
                     /db_xref="CDD:227952"
     misc_feature    order(811..816,820..822,871..873,889..891,928..930,
                     934..939,946..951,955..963,967..972)
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    811..969
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(817..819,937..939,946..951,958..960)
                     /gene="hox1"
                     /gene_synonym="Ci-Hox1"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
ORIGIN      

gcacgagggtttagactttaggtaaaattaaagttaaaacaaaaattgtagcagcaacacacgaaggatctgcacagctcgttaatagaaaggtgtaagatgaattcgtacatgaaatacccggttcatgcttcaaactcaaattcctataccaaccacatcaccccgcaaggcccattccctacgtctcatgccaataagccaactgtgttaccacatgaaacatctgcatacggaatatacagaactgttgaatccatccgaaatcacaatgaatcgacagtaacgccacaaaatgaaggtagtcctggcagaagctcccgagagaactctccaacaggacctgttggtacaactgtacattcaacagataattcaccctatgcatattcacctgcttgcttaaactataacacaagtactccctactgcaaccaacttgtgggggccgatttaaactatgtacaccaaagttattcaatcaatgaatcgtacccaacctccaatcccttatatacgagcaccttttcaaacaattcgttatattcccaatacaacccatgcattttgggtccaaatgtttctcgagatgaaacgaacgactcggtcattaattcttgcggcgtccaagatcgcatttctccgccaaattccgcgtatgatactcctactgcgagccctcaatgtaccaacacactgccgagtaacacttacgattggatgaagataaagagaaacccaccgaaaagcatatatttttcacaaaacaaaatggtggagtacacctacggagtaactggaaataacggcagaacaaatttcactacaaaacagcttaccgagcttgaaaaagagtttcacttcaataagtacttaacaagagccaggagggttgaaatagcagcagcattgcgccttaatgaaacccaggtaaaaatatggtttcaaaatcgtcgtatgaagcagaagaaaagggacaaagaagcagaaaagttaaacggaaataaaatgtcacaaagcaaaagcgaaacgcttcatggcttgaaacaaacttctacatcttcatcaactaatcccatgtacctcgcatcgtcatcatcaaacaaaagcactggcgtcacaaactacaattccttaatgttaagtcatcagttccaaaaacctgccgcagaggcggacatgaatatagtcacgtgaccttgacatcaattaccagcaaggtagtcaacccaacagcgagtaacgtcacacaatatacgtcctcgttttgcgcatcattgtagatgaccaagaaagcgcataaactacacgcagtcattttattttatcttttaaaacacccgtgaaacaaaatataaaaaaagtctaagtatttggattcggtttcatatatgtacaatattcgtaagcattctgtttattacaatgtagttatattttaacgcctgttacaatttggataacgctttattttaaaatcaacaacacaaaaaaaaaaaaaaaaaa

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