LOCUS       NM_001078280            2662 bp    mRNA    linear   INV 26-JAN-2026
DEFINITION  Ciona intestinalis transcription factor protein (irx-c), mRNA.
ACCESSION   NM_001078280
VERSION     NM_001078280.1
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
REFERENCE   1  (bases 1 to 2662)
  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   2  (bases 1 to 2662)
  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
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AB210516.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB210516.1 [ECO:0000332]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2662
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="3"
                     /map="3"
     gene            1..2662
                     /gene="irx-c"
                     /note="transcription factor protein"
                     /db_xref="GeneID:778658"
     exon            1..52
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    20..22
                     /gene="irx-c"
                     /note="upstream in-frame stop codon"
     exon            53..391
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     CDS             218..2311
                     /gene="irx-c"
                     /codon_start=1
                     /product="transcription factor protein"
                     /protein_id="NP_001071748.1"
                     /db_xref="GeneID:778658"
                     /translation="

MQSELPGLNMYAGPGGSSALTSPANYGGVPAAVGSAPGLVPPHYGSTGMDHSPYYSSLAPAYDMKPGGTDVWGGSYGQAPPGYYPYENTFGSQYPYDRYCGVDMNDGVRRKNATRESTNTLKAWLQEHKKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWVPKNRSNENASSTDEKKIDPDDDDSNSQNQDCDDKIDADQSLDSDDSAEREVTSTNDNDVTNTPYSRDSGVYGGEKSEDLNVSDQNDQQLGQGKDFSSTYQQPSDVGFERPAMPTDTVQRYGPTDASRIWSPINDIGSGSSYPTKCPDNVGDSHLNLPPSFRGSYSDDQFSAISRPQQTPSAVSPSMISGVDLPGRIGECRYPSVQNWVDGVYHSAVPPTPDPDSTTCHPISAERRDSIDGRIEVDRLQGVSPSSPHFQHQQFPCKQLPTQNPHLTVNDNEHYTYHERRVPTDNVGSPGNLHGQVAPPSYQMFGFNSQLQGLGTGDYYHDERMAAQSSAEARLGYYNPQRSADPRQDMNSQQQQGRIHNVYHPGDPKPSVLASPSSASGSSPASRQLCPGEQSLASRLVPSSYHANPGMSVSATNPSTFHGQYYQMSGDLTKRGHSHTSNTPSNNYMMVCGNGVDQRNMDATQGFQNPLNTQHNSYNRSPLPSNSPHTELIMSPRDGDELREMQAAETLTNLSTR"

     misc_feature    <524..781
                     /gene="irx-c"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(542..550,554..556,614..616,632..634,671..673,
                     677..682,689..694,698..706,710..715)
                     /gene="irx-c"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(542..544,551..553,680..682,689..694,701..703)
                     /gene="irx-c"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    590..706
                     /gene="irx-c"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    734..>913
                     /gene="irx-c"
                     /note="OMS28 porin; Region: OMS28_porin; pfam03532"
                     /db_xref="CDD:460960"
     exon            392..510
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     exon            511..673
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     exon            674..830
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     exon            831..2195
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     exon            2196..2247
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
     exon            2248..2647
                     /gene="irx-c"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cttgaatatatattggatataaaaaagaaaaaagaaaacatcatttgcggagccgcttggtcttggaccaaacgaaacaaacaagccaggctatttcggcgattcctcagtcagtccttcaccgttggtcgtttcggtttcgagttcggcacaccacgtcggggatccagccgcccaagtctattcgaccggagaagggtgcttcgtgcccggccgaatgcagtcggagctgcccggtcttaatatgtacgccggaccaggcggatcatcggctctaacctcgccggcaaactatggcggagttcccgccgccgtaggaagtgcgcccggcctcgtcccaccccattacggatcaacaggaatggaccattcgccctactactcgtccctggcgccagcttatgatatgaagccgggtggtacggacgtctggggtggaagctacggacaagcaccaccgggatattacccttacgagaacacgtttggaagccagtacccatacgacagatactgtggagtcgacatgaatgacggtgtcagacgtaagaacgcaaccagggaatccactaacacactgaaagcttggcttcaggaacacaagaagaatccctaccccaccaaaggcgagaaaataatgctcgccattataactaagatgactctgacccaggtgtcgacttggttcgcgaacgcgcgtcgtcgcctcaagaaggaaaacaaaatgacgtgggtcccaaagaaccgctccaatgaaaacgcgagttctaccgacgagaagaaaatagaccctgatgacgacgacagcaactcacaaaaccaagattgtgatgacaaaatcgatgctgatcagtcccttgattccgatgactcagcagaaagggaggtaacaagcacaaacgacaatgacgtaaccaacacaccctactcacgtgatagtggtgtatatggaggggaaaagagcgaagacttaaatgtgtcagaccaaaacgatcaacagctgggtcaaggaaaagacttttcaagcacgtaccaacaaccaagcgacgttggttttgagcgacccgcaatgccaacagacactgtgcaaagatatggcccgaccgacgcttccaggatctggtcgcctattaacgatattggtagcggatcttcgtacccgacaaagtgcccggacaatgtcggagattctcatttgaaccttcctccgtcgttccgtggttcctacagcgacgatcagttctctgccatcagtcgtccgcagcaaactccatcagcagtcagtccttccatgataagcggggttgaccttcctggaagaatcggtgagtgcagatacccgtctgttcagaactgggtggacggggtataccacagcgcggtcccgccgaccccagacccggattcgacaacttgccatccaatttcagcggaaaggagagattcgattgacggaagaatcgaagtcgatcgtttgcaaggagtgtcgccttcctcccctcatttccaacaccagcagttcccatgcaaacaattaccaactcaaaacccgcacctaactgtgaacgataacgaacactacacctaccacgagcgcagagttcctaccgacaacgttggaagtccaggcaacctccatggtcaagttgcgcctccatcctaccaaatgtttggatttaacagccaactacaaggccttggaactggggactattaccacgacgagcgcatggcagcgcagtcttcagccgaagcgagactgggctactacaacccccaaagatccgccgacccacgtcaggatatgaactcgcaacaacaacaaggtcgcatacacaacgtataccaccctggcgacccaaagccgtcagtcctcgcctcaccctcgtcggcgtccggtagttcgccggcttcgcggcaactctgtcccggagagcaatcgttggcgagtcgacttgtccccagttcttaccacgccaatcccgggatgtccgtttcggcaacaaacccaagtactttccatggtcaatattaccagatgagcggagaccttacaaagcgaggacactcacataccagcaacacaccctccaataactacatgatggtttgtggtaacggagttgaccaaagaaacatggacgccacgcagggatttcaaaatcctttaaacactcaacacaacagctacaaccggtcgccattgccgtcgaatagtccccatacagagttgataatgtcgccacgagacggggacgaactaagggaaatgcaagcagctgagaccttgaccaatctatccacaaggtgatgctgtaggcagctacggtataccagggttggacctggccacgaattggcgccgttggccgaacgatcatggctgaaatacgtcatcttaacagaaataattcaccgttagtaagatgggcggagaaccagctgcaaggccaagccaacattcccgctgtataatgttcctaatatacgtggttatgcctcgtataccggtataccagggcgcgatgtaccgaagatactcactggggtgtgggaaaatttaattaattttaaagtgttgttatttcttttaagttaattcaacctgctgtaatcattgcgttattacaaagaacaaaaattgaaaaaaaaaaaaaaaaaa

//