LOCUS       NM_001008112            2426 bp    mRNA    linear   VRT 01-FEB-2024
DEFINITION  Xenopus tropicalis iroquois homeobox 2 (irx2), mRNA.
ACCESSION   NM_001008112
VERSION     NM_001008112.1
KEYWORDS    RefSeq.
SOURCE      Xenopus tropicalis (tropical clawed frog)
  ORGANISM  Xenopus tropicalis
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae;
            Xenopus; Silurana.
REFERENCE   1  (bases 1 to 2426)
  AUTHORS   Rodriguez-Seguel,E., Alarcon,P. and Gomez-Skarmeta,J.L.
  TITLE     The Xenopus Irx genes are essential for neural patterning and
            define the border between prethalamus and thalamus through mutual
            antagonism with the anterior repressors Fezf and Arx
  JOURNAL   Dev Biol 329 (2), 258-268 (2009)
   PUBMED   19268445
REFERENCE   2  (bases 1 to 2426)
  AUTHORS   Klein,S.L., Strausberg,R.L., Wagner,L., Pontius,J., Clifton,S.W.
            and Richardson,P.
  TITLE     Genetic and genomic tools for Xenopus research: The NIH Xenopus
            initiative
  JOURNAL   Dev Dyn 225 (4), 384-391 (2002)
   PUBMED   12454917
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC081317.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC081317.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00862008 [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2426
                     /organism="Xenopus tropicalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:8364"
                     /chromosome="6"
                     /map="6"
     gene            1..2426
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="iroquois homeobox 2"
                     /db_xref="GeneID:493475"
                     /db_xref="Xenbase:XB-GENE-480618"
     exon            1..679
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    413..415
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="upstream in-frame stop codon"
     CDS             443..1813
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein irx-2"
                     /protein_id="NP_001008113.1"
                     /db_xref="GeneID:493475"
                     /db_xref="Xenbase:XB-GENE-480618"
                     /translation="

MSYPQGYLYQPPGSLALYSCPAYGASALAAPRSEELARSSSGSAFSPYPGSAAFTAQAATGFSSPLQYSSDPAGFPSYMGSPYDAHTTGMTGALSYHPYGSAAYPYQLNDPAYRKNATRDATATLKAWLQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWAPRNKSEDEDDDEGDGERVKEEQSEKAQDCNETSAEDEGISLHVDSLTDHSCSADSDGEKLPCRATDHLCESGSESKEKYDDDEDEEEGDEEDRVLPVKPATSSPLTGVEAPILNHQQDGSPRNSNKTSLDNGMSPSSQTPASKPKLWSLAEIATSDHKHSNLGSVLSSATSSAAHNPSYPSSSLLGRHIYYTSPFYSNYTNYGNFNALQSQGILRYSSAAVTANEGLNQTVLSTSSMHKHTSDSVRTASNQLDQHYRPTNFESKKDPSEVCTVGVQPYP"

     misc_feature    <770..1078
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(782..787,791..793,851..853,869..871,908..910,
                     914..919,926..931,935..943,947..952)
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(788..790,917..919,926..931,938..940)
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    827..943
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    956..1084
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="propagated from UniProtKB/Swiss-Prot (Q66IK1.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1178..1402
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="propagated from UniProtKB/Swiss-Prot (Q66IK1.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1391..1441
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     misc_feature    1742..1810
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /note="propagated from UniProtKB/Swiss-Prot (Q66IK1.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            680..1085
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /inference="alignment:Splign:2.1.0"
     exon            1086..1769
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /inference="alignment:Splign:2.1.0"
     exon            1770..1837
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /inference="alignment:Splign:2.1.0"
     exon            1838..2403
                     /gene="irx2"
                     /gene_synonym="iro2; Xiro2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cctccctgccagaaaaaaagtccatcctggcagcaggcgctgggggagctggctggctgtgggagctccatatgcagcagccactttgttgagcaccttgatcactctgctctgcttctccttcctgtgagcctctctccagctcatgatctgcttctcccctccatcacccctctgcgcttattctctgattggatttctacctatccatgatcacacagagagcagattgatctgcggctggtgggtgccccagaggggaggggtggaggcaggacacttttatttccttgcatgagtgaggacagaagcgagaaggcacagctgagcgagaataagggcagaaaacactgtcgttattgacctgccccctccccttttcaccctgatccgtgtaactcagtcagctcggtgattctctgcttctgcacccggagctgccatgtcctatcctcagggttacctctaccagcctcccggctccctagcgctctactcctgcccggcgtacggggcttcagcgctggccgcccccaggagcgaggagctggccaggtcatcgtccggctccgccttcagcccctacccgggatcggctgccttcactgcccaagcggccacgggcttcagtagccccctgcagtactccagcgacccggccggattcccttcttacatgggatcgccttacgatgcgcacacaactggcatgactggggccctcagctatcacccctatggaagtgcagcttatccctaccaacttaatgatcctgcatacaggaaaaacgctaccagggacgctaccgccaccctaaaagcctggctgcaggagcacaggaagaacccttaccccaccaagggggagaagatcatgctggccataatcaccaagatgaccttaacccaggtctcaacgtggtttgccaatgccagaaggagactaaagaaggagaataagatgacctgggctcccaggaataaaagcgaagacgaagatgatgatgaaggcgatggggaaagggttaaagaagaacaatcggaaaaggcccaagactgcaatgagacttcagcagaggacgaaggtatcagtctgcacgttgactccctgacagatcattcttgttcggctgattccgatggagagaagttgccttgtagggccaccgaccatctttgcgaatcggggtccgaatctaaagagaaatatgacgacgatgaagacgaagaggaaggtgatgaagaagacagagtgctcccagttaaacctgcaacctcatccccactcacaggtgtggaagcaccaattctaaatcaccaacaggacggaagcccaagaaactcaaataagacaagtttggacaatggaatgtctccaagttcgcagacaccagccagcaaaccaaaactgtggtcactagctgaaatagccacctcggatcacaagcattctaacctgggttctgtcttatcttctgccacttcttccgcagctcacaatcccagctacccctcctcttcactcctagggaggcacatatattatacatcgcctttttatagcaattatacgaactatgggaatttcaatgctctccaaagccaagggattctgcggtatagttccgcagcagtgactgctaatgaaggactaaaccagactgtactaagcaccagctccatgcacaaacacaccagtgactctgtaagaacagccagcaaccagctagatcagcactacaggcccacaaacttcgaatctaaaaaagatcccagtgaagtctgcacagtaggagtacaaccatacccatagatgtgcagtcagacagcaatgcaagtagatgtcacaattggtttgaaaaaagtcagcaagccatcacctcttcccctgctaataagtattacaaatatctaaatccggatcacactctgtgccactgtagaaacgaagatcaacagaacactattaaagctccatatatttttaatacaaagagatctcccttggacatatgtgaaattcttggtatagtatagttaccccgatcttgtgactctctgcaaacaatgatctgttttctcaggatatcttgacttgatcacttcattgccacgacatgtattcaataggtgtgatagaataaattgtgaagaatggagagaagaaaatatttgtgaaagatgtatacaatagagaccataattcctaaatgaggaactggagtacttaaaatatcgggttaaaaggaaacaaaaaagtgtaaagaaaaaacacagatttgatatttatttttgtaatgatgatattaaagcttatagtaatttatgcaagttgtattgcaaagaaattcccaaacttgtttttgtaaataaatgttgcctggtttttatttgaaaacaaaaaaaaaaaaaaaaaaaaaaaaaaa

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