LOCUS       NM_001078278            2127 bp    mRNA    linear   INV 26-JAN-2026
DEFINITION  Ciona intestinalis transcription factor protein (irx-a), mRNA.
ACCESSION   NM_001078278
VERSION     NM_001078278.1
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
REFERENCE   1  (bases 1 to 2127)
  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   2  (bases 1 to 2127)
  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   3  (bases 1 to 2127)
  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   4  (bases 1 to 2127)
  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 AB210514.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB210514.1, AK174160.1 [ECO:0000332]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2127
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="11"
                     /map="11"
     gene            1..2127
                     /gene="irx-a"
                     /note="transcription factor protein"
                     /db_xref="GeneID:778656"
     exon            1..132
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    40..42
                     /gene="irx-a"
                     /note="upstream in-frame stop codon"
     CDS             55..1758
                     /gene="irx-a"
                     /codon_start=1
                     /product="transcription factor protein"
                     /protein_id="NP_001071746.1"
                     /db_xref="GeneID:778656"
                     /translation="

MSFLPFPVAFSSNPSMTSRTSLSEAQATISDPGRSGLTEQRSPDNGVHFPAEARGIPGRPTDIASALFGLPYTAQVAHGRLVPPVYPALPPGIDSAALQSTLSRMDPKDFPSWGNPLHPGPFYPYDPTLMYQHSGYGPMGLSDGARRKNATRETTSTLKAWLNEHRKNPYPTKGEKIMLAIISKMTLTQVSTWFANARRRLKKENRMTWSPRNRCGEEENERESDEEERGEMREEGNSPNEMRRTEPRDSDNSNPGTNLSGSNSDLAYQRHQRAHQQQMFLRHLASLPPHLRPVDPFRHFQLHNQRLATQGMHLLPGNSRSNDHVGALKHDQQRRSSLSSPSASASSYDRSPSPVNQPRNFRPPPPLNQITSPSKSPSHRFRFSPEPTERGSDEENKKTEARDSKKEKIWSPVSLTETTDKPRSITSRDSPPTPRHTIESPVGKSPSNPLAVAQAWMEEYQRHLATRNPQLLASTLASIAAKRGSSGGFPFLPFQSGPQSAVSVTSRMESMETSRDDDSLTSDTEAGPNLPMNLSKNKDRGNHSNDDVPLVIDDVERKPLMRSIVAS"

     misc_feature    order(490..498,502..504,562..564,580..582,619..621,
                     625..630,637..642,646..654,658..663)
                     /gene="irx-a"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(490..492,499..501,628..630,637..642,649..651)
                     /gene="irx-a"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    538..654
                     /gene="irx-a"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            133..360
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            361..458
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            459..621
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            622..757
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            758..1645
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            1646..1760
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
     exon            1761..2110
                     /gene="irx-a"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ctctattaggctttggctgtattatgacctaacaaatactaaaataatacaaagatgtcgtttcttccttttcccgtcgcgttttcctcaaacccaagcatgacgtcacgaacctccttgtccgaggctcaggcaacaatttccgaccctggtagatcagggcttaccgagcaacgtagcccggacaacggagttcattttcccgccgaagcccgtggaattcccgggcgcccgactgacatcgcttcagcgctatttggtctcccatataccgcccaggtcgcacatggacggttggtgcctcctgtttacccagccttgccaccaggcattgactcagcagcattacaatccacactcagtcgaatggacccaaaggatttcccatcttggggaaacccccttcacccaggcccgttttacccctacgacccaactcttatgtaccaacacagcggatatggaccaatgggtctcagcgacggtgctcggcgtaaaaacgcaacccgagaaacaacatcgacgttaaaagcgtggcttaatgaacacagaaagaacccttacccaactaaaggggaaaagatcatgttagctattatttcgaagatgacgctaacgcaggtttcgacctggttcgcaaacgcgcgtcgtcgattgaagaaagaaaacagaatgacttggtctcctcggaacagatgtggggaagaagagaatgaaagagaaagcgatgaggaagaaagaggagaaatgagagaagaagggaattccccgaacgagatgagacgaaccgagccacgtgacagcgacaacagtaacccgggtacgaatcttagcggaagcaactctgatcttgcttatcaacgtcaccagagggcgcaccaacaacaaatgttcctacgtcatcttgcctctctaccgccgcacctgcgaccagtcgaccccttccgacatttccagcttcacaaccaaagactcgcaactcaggggatgcacctactaccgggaaattcccgctccaacgaccacgtcggtgcgctgaagcatgaccaacaacgaaggagcagtttaagctctccctcggcatccgcatcgagctacgaccgatcgccgtcacctgttaatcaaccacgtaacttccgcccgccaccccccctgaaccagattacgtcaccatccaaatcgccgtcgcatcgattccgcttctctcccgaaccaacagaacgcggctctgatgaggagaacaagaaaaccgaagcccgcgactccaaaaaggagaagatttggtcgccagtctcgcttaccgagaccactgataaaccacggagtatcacatcccgggattccccacctaccccacgtcacacaatagaaagccctgtaggaaaatccccttctaacccactggctgttgcccaagcttggatggaggaataccagcgccacctagcaacgaggaacccccaacttctagcttcgacgttggcgtccattgccgcaaaaaggggatcctctgggggatttccctttttgcccttccagtcgggtccccagtcggccgtttctgtgacgtcacgaatggaatccatggagacgtcacgtgacgatgactctctgacgtcagacacggaagcagggcctaacttgcccatgaatctatcaaagaacaaagatcgtggtaaccatagcaatgatgacgtacccctcgttattgatgacgtagaaagaaagccactgatgcgatcaattgttgcaagctaaagagattcgattatgacgtaagaatctgttctttatggaagaagttgtgacaccaacaccagacactctgtgacgtaacacttgtgtaaagatgcatgtggaaacaatgtaaacggcgcgaaaatcgcgattgtttatttgactgaacagttgtttatcgtgtgtagttccgcatgagggacttccccacacgaacctataattaaaatccggattactcgatgttattgttattcgtttgtgtcgaagacaatgaaattcaatatccggtcggacacgtgacttttatggcgtctgaactaaaatcttttaaactttaataattatttcaatataaccgaacaataccagaaaaaaaaaaaaaaaaaa

//