LOCUS       NM_001078335            2290 bp    mRNA    linear   INV 04-MAY-2019
DEFINITION  Ciona intestinalis transcription factor protein (prep), mRNA.
ACCESSION   NM_001078335
VERSION     NM_001078335.1
KEYWORDS    RefSeq.
SOURCE      Ciona intestinalis (vase tunicate)
  ORGANISM  Ciona intestinalis
            Eukaryota; Metazoa; Chordata; Tunicata; Ascidiacea; Phlebobranchia;
            Cionidae; Ciona.
REFERENCE   1  (bases 1 to 2290)
  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 2290)
  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   3  (bases 1 to 2290)
  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 AB210651.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB210651.1 [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           SAMD00013799, SAMD00028078
                                           [ECO:0000350]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2290
                     /organism="Ciona intestinalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:7719"
                     /chromosome="11"
                     /map="11"
     gene            1..2290
                     /gene="prep"
                     /note="transcription factor protein"
                     /db_xref="GeneID:778735"
     exon            1..76
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            77..163
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    107..109
                     /gene="prep"
                     /note="upstream in-frame stop codon"
     CDS             113..1441
                     /gene="prep"
                     /codon_start=1
                     /product="transcription factor protein"
                     /protein_id="NP_001071803.1"
                     /db_xref="GeneID:778735"
                     /translation="

MSQDMTQHQYSSECHGQDTGTGVEGLDEAAQLENDKHLIKTHPLFVLLELLFEKCERATRGEDNPTSLSFDDDIQEFVRREDFRMSPIIIDNPEIDNLMIKAIQVLRIHLLELEKVNELCKDFCHRYITCLKGKMHSENLLRTDMTGFVDPNTHSLVAQGNSQCMANTPNANVTVNQQGEIVMQGGLYQQSLSPNSQMLSQSDSGIDGSTPLSQVGVSPPSSQLQMLGTQQLFHLQHQPIPSCGLTDETSGRKTKRGVLPKQATEILRSWLFSHIVHPYPTEDEKRSLATQTNLTLLQVNNWFINARRRILQPMLDASNPDPSTPPAASPKIKKSKPQSARPTERFWPNSLSFNGGQRNEEPKDETSSRMSIERPSCAQQASKNEQSDQTLISDNFHPPTSDHSPPNNNTLGHRSPNHLHHYPHNDLALTSSASLGLSVGNN"

     misc_feature    293..550
                     /gene="prep"
                     /note="N-terminal of Homeobox Meis and PKNOX1; Region:
                     Meis_PKNOX_N; pfam16493"
                     /db_xref="CDD:465140"
     misc_feature    order(869..883,887..889,947..949,965..967,1004..1006,
                     1010..1015,1022..1027,1031..1039)
                     /gene="prep"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(875..877,884..886,1013..1015,1022..1027,1034..1036)
                     /gene="prep"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    923..1039
                     /gene="prep"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            164..234
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            235..406
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            407..489
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            490..665
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            666..781
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            782..940
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            941..1017
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            1018..1193
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
     exon            1194..2273
                     /gene="prep"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

attttggtgctttcagtttgacgaagattgacgtttcgattgaaaatatccacgcatttgctcaagctcaatttttgcatctggtactgtggctgtaatgtaaagataaagcatgagtcaggacatgactcaacatcagtacagctcagaatgccacgggcaggatacaggaactggtgtagaagggttagatgaagctgcacaactagaaaatgacaagcatttgattaaaacgcacccactttttgtattactcgaactattgtttgaaaaatgtgagcgcgccactcgtggtgaagataatccaacatcgctgagtttcgatgatgatatacaggagttcgtacgaagagaagatttcaggatgtcccccattattattgacaacccagaaattgataacctgatgatcaaagctatccaagtattgcgaatacatttacttgagctagaaaaagtcaacgaattgtgcaaggatttttgccacagatacattacctgcttaaaggggaaaatgcacagcgagaacttgttacgaacagatatgactggctttgtggatcctaacacccacagtttggttgcacaaggaaactcacaatgtatggctaatactccaaacgcaaacgttacagttaaccaacaaggagagattgtaatgcaaggtggattgtatcaacagtcattatctcccaatagtcaaatgttaagtcagagtgacagtggtattgatggctctacacccctttcccaggttggggtatctcccccaagctcccagttacagatgcttggaactcagcaattatttcatcttcaacatcaaccaataccttcatgtggtttaactgatgaaacttctgggaggaaaacaaaacgtggggttcttccaaaacaagcaactgagatattgcgatcttggctattttcccatattgtgcatccgtatccaactgaagatgaaaaaagatcgctcgctactcaaaccaacctgactttgctgcaagtaaacaactggttcatcaatgctcgtcgccgaatcctccaaccgatgctggatgcgagtaatcctgatccctccactcctccggctgcgagtccaaagattaagaagtcaaaaccacaaagtgcgagacccacggaacgcttctggccaaactccctttcttttaatggaggtcaacgcaatgaggaacccaaagatgaaacatcatcgcgcatgtccatcgagcgaccatcatgcgcccaacaagcttccaaaaatgaacaatctgaccagactttgatatctgacaactttcacccccctacaagtgaccattcgccacccaacaataacacattggggcatcgttcgccaaatcatttacaccattacccacacaacgacttagctctgacgtcgtcagcctcccttggtcttagtgttggtaacaactgacgctgctaattttttcaaattttatcaatacacaactgttgtgatttcttaatgcaggcagtagcttagactttgttctgtctttacttatgttaaaatatccatggtgctggttactagccctttttgttttagctcgatcctactgcatggtgtaacattcacgggtgccagaccgtctgtttgatatggtacttgtgcataacgccatgggtgcttatgactattgaagttcatttattcgttcattttttcttatgcatgcttttgattttttgccgaataatttttagaggttttacttgaaatatttgataattcttgattcgatacagtttcactcactcagttttttcctcaaatgtttgaacagttacctaaacaaaaattgagttattttattgtttttttttctgcttttgtccaagttgaagcgctaccaatacatgaagtattacatctagcaaaatgtactttatgtgcccacacgcacttaaaatgttccactttttaacagcatgcccgaaactatactagacttctcatacactctttgcatgttattcgttaattttactgctatttcttacggacctgccaaagtttcgttccaaattttcttttttttttaaatttgccggagtgctccgtttgttcacataccgcccaacatacaaaatttgccttttaatagaattgtacaataccatcaatatattattaaatatgtagcaagtttctcatgagtttttcaagaaatatctggtgttacgaaaacataacagataaaaatcatatctaagcaattgcataataaaaaatatatatttcaaaaaaaaaaaaaaaaaa

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