LOCUS       NM_001032517            1788 bp    mRNA    linear   INV 07-DEC-2018
DEFINITION  Ciona intestinalis paired superclass homeobox transcription factor
            (pitx), mRNA.
ACCESSION   NM_001032517 XM_004227039 XM_004227040 XM_009863003
VERSION     NM_001032517.2
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
REFERENCE   1  (bases 1 to 1788)
  AUTHORS   Yoshida K and Saiga H.
  TITLE     Left-right asymmetric expression of Pitx is regulated by the
            asymmetric Nodal signaling through an intronic enhancer in Ciona
            intestinalis
  JOURNAL   Dev. Genes Evol. 218 (7), 353-360 (2008)
   PUBMED   18546017
  REMARK    GeneRIF: The regulatory mechanism controlling the left-right
            asymmetric expression of the Pitx genes is well conserved between
            C. intestinalis and vertebrates.
REFERENCE   2  (bases 1 to 1788)
  AUTHORS   Satou Y, Kawashima T, Shoguchi E, Nakayama A and Satoh N.
  TITLE     An integrated database of the ascidian, Ciona intestinalis: towards
            functional genomics
  JOURNAL   Zool. Sci. 22 (8), 837-843 (2005)
   PUBMED   16141696
REFERENCE   3  (bases 1 to 1788)
  AUTHORS   Christiaen L, Bourrat F and Joly JS.
  TITLE     A modular cis-regulatory system controls isoform-specific pitx
            expression in ascidian stomodaeum
  JOURNAL   Dev. Biol. 277 (2), 557-566 (2005)
   PUBMED   15617693
REFERENCE   4  (bases 1 to 1788)
  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 1788)
  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 1788)
  AUTHORS   Boorman CJ and Shimeld SM.
  TITLE     Pitx homeobox genes in Ciona and amphioxus show left-right
            asymmetry is a conserved chordate character and define the ascidian
            adenohypophysis
  JOURNAL   Evol. Dev. 4 (5), 354-365 (2002)
   PUBMED   12356265
REFERENCE   7  (bases 1 to 1788)
  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
REFERENCE   8  (bases 1 to 1788)
  AUTHORS   Christiaen L, Burighel P, Smith WC, Vernier P, Bourrat F and Joly
            JS.
  TITLE     Pitx genes in Tunicates provide new molecular insight into the
            evolutionary origin of pituitary
  JOURNAL   Gene 287 (1-2), 107-113 (2002)
   PUBMED   11992728
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            EAAA01003470.1.
            
            On Dec 7, 2018 this sequence version replaced NM_001032517.1.
            
            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 alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY677185.1, AJ438769.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00028082, SAMD00028084
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-597               EAAA01003470.1     20905-21501
            598-841             EAAA01003470.1     31501-31744
            842-908             EAAA01003470.1     31955-32021
            909-1788            EAAA01003470.1     33249-34128
FEATURES             Location/Qualifiers
     source          1..1788
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
     gene            1..1788
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /note="paired superclass homeobox transcription factor"
                     /db_xref="GeneID:445699"
     exon            1..597
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /inference="alignment:Splign:2.1.0"
     CDS             21..1421
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /note="pituitary homeobox pitx"
                     /codon_start=1
                     /product="paired superclass homeobox transcription factor"
                     /protein_id="NP_001027689.2"
                     /db_xref="GeneID:445699"
                     /translation="

MNTDLSTSYSVQTNQSNSALNHIDQSEITNNFYVTNHCDVIEPDSYVTLHSPTLSGLHGQEVFSSKSEGVQQGNQNSGIATTTSYYQFQHKEMDFQNRRPRVKQETDVQIGMPDMNLSRERKTEFQPTDSGFPENSGTPTSYQQPNYPYYFQFPAQNEVRHPEEFGRSTIHHQEPYQQERAQEIPFVNIKVEEESVEKMEELNPASEAGGSEGETDKKNNKNTNNNTDTEKSSPGNACSDDADGDKSKRRQRRQRTHFTSQQLQELEALFARNRYPDMSTREEISAWTNLTEARVRVWFKNRRAKWRKRERNQLTDFKGFGQFNSFMSHYDGYSYNNWASTMTAGTKAFPWGINAGLNPLTTQPALGFPSAAPMPSSIAANTVMPTMSMSNGLSGLASGSSVTSPGCHYNPPAPGYMYRSGTDPCASSLTSLRLKAKQHNPVSPYIGYPAVRDPSAFPPCQYGPTS"

     misc_feature    786..941
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(789..791,909..911,918..923,930..932)
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1287..1340
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /note="OAR domain; Region: OAR; pfam03826"
                     /db_xref="CDD:427530"
     exon            598..841
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /inference="alignment:Splign:2.1.0"
     exon            842..908
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /inference="alignment:Splign:2.1.0"
     exon            909..1788
                     /gene="pitx"
                     /gene_synonym="Ci-Pitx; PITX1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

agatttcatacaatgaaattatgaataccgatcttagcacttcttattcagttcaaaccaaccaatcaaacagcgctctaaaccacatcgaccaatcagaaatcaccaacaacttctacgtcacaaaccactgtgacgtcatagagcctgatagttacgtcactttacactccccaactttatccggactccacgggcaagaagttttttcgagcaaaagcgagggagtgcagcaaggcaaccagaacagcggaatcgccaccacgacgagttattatcaatttcaacataaagaaatggacttccaaaacagaagacctcgagtgaagcaagaaaccgacgtccaaataggaatgccagacatgaatttgtctcgtgaacggaaaactgaattccagccgacagattccggttttccggagaattcgggcacgcctacatcataccaacaacctaattatccatactacttccaatttccggctcaaaacgaagtgcgacaccctgaggaattcggaagaagcacaattcaccaccaggagccgtaccagcaagaaagagcacaggaaataccatttgtgaacattaaagtcgaagaagaatcagtcgaaaaaatggaggaactgaatccagcaagcgaagcaggcggcagtgaaggcgaaaccgacaagaagaataacaagaacacaaataacaacacagacacagagaaatctagtccagggaacgcatgtagtgacgatgcagatggcgacaaaagcaaaagacgacaacgcagacagaggacacattttacttcacaacagctacaagaattggaagcattattcgcacgaaacaggtatcctgatatgtcaacgagagaagagatatcagcttggacaaaccttaccgaagcacgagtccgggtctggttcaagaatcgtcgcgcaaaatggcgaaagcgggaacggaatcaacttaccgacttcaaagggttcggtcaattcaacagcttcatgtcccattatgatggctattcatacaacaactgggcaagcactatgaccgccggtaccaaggctttcccatggggtattaacgccgggttaaatccactgacgacccaaccggctctcggttttccttcagcggccccaatgccgagcagtatagctgcaaacactgttatgcccacaatgagcatgagcaacgggttatccggtctcgcttccgggagctctgtcacctcccctggatgccattataacccaccagcgccagggtacatgtatagaagcggcactgatccatgcgcgtcctctttaacctctctacgcctcaaagctaaacagcataatcctgtaagtccatacattggataccccgcagtaagagacccgtctgcgtttcccccttgtcagtatggccccacatcctaaactacacgaatacggctaggtcaaaatcatcccaatccgaattctaacatttcgggtcgaaaagtacaatctatttattacaagttcctgttggtcatcttctgatcagtcaccacagagcagatgggctaatatgtgtttgcagttatgtgatcgtgattatgaaatgcagtcatgttccttcgtatgtcgtgtatatatcattgcaaaagaagcgattttggcgacgcattataatggtgttgctgcccaacagtcgggattatttagcgtcgtaatattgatgtactgttaacttgaacttttgctgaatgtgtcaaaactgaagtttctgctgaaaatcatcaaataaaattaatccttcata

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