LOCUS       NM_001276692            2254 bp    mRNA    linear   VRT 06-FEB-2024
DEFINITION  Xenopus tropicalis iroquois homeobox 4 (irx4), mRNA.
ACCESSION   NM_001276692 XM_002941772
VERSION     NM_001276692.1
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 2254)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CR420107.1 and CT025292.2.
            
            On Feb 27, 2013 this sequence version replaced XM_002941772.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: CT025292.2 [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           SAMD00028291, SAMD00028292
                                           [ECO:0000350]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-56                CR420107.1         140-195
            57-2254             CT025292.2         1-2198
FEATURES             Location/Qualifiers
     source          1..2254
                     /organism="Xenopus tropicalis"
                     /mol_type="mRNA"
                     /db_xref="taxon:8364"
                     /chromosome="6"
                     /map="6"
     gene            1..2254
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="iroquois homeobox 4"
                     /db_xref="GeneID:100038068"
                     /db_xref="Xenbase:XB-GENE-480570"
     exon            1..174
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
     exon            175..325
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    272..274
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="upstream in-frame stop codon"
     CDS             281..1771
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein irx-4"
                     /protein_id="NP_001263621.1"
                     /db_xref="GeneID:100038068"
                     /db_xref="Xenbase:XB-GENE-480570"
                     /translation="

MSYPQFGYPYSSTPQFLMTTNSLSTCCESSGRSLSDSAAAASAQTPVYCPVYESRLLATARHELNSAAALGVYGSPYTSTQGYGNYVTYGADASAFYSLNAFESKDGTGSAHAGIPQTAAYYPYEHTLSQYQYDRYGTMDGSTRRKNATRETTSTLKAWLQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWPPRNKCSDEKRPYDEEEEEEEEEDSQKATIKNEKKIVDEEVAREDKALDLSDLEDFDAIESESSECELKQPFHHQPQDGHQLRQRDCVNDHCKDVILKMPITPAANQELDRTKICHKPGVDQCEQDVLRGRQRGGESKACFQQQQILDSKPRIWSLAHTATSLNQTEYPSCMLKHQGLSSPSSSSSSSAVSTPVCVIDRRQDSPVTSLRNWVDGVFHDPLFRHSTLNQALTNTTVSWATTKGTLIDSGSLGRSVGNPTNAIKGQLPNIPHDTNKEFIAFQKSGSKMFCS"

     misc_feature    order(710..718,722..724,782..784,800..802,839..841,
                     845..850,857..862,866..874,878..883)
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(710..712,719..721,848..850,857..862,869..871)
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    758..874
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    887..988
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="propagated from UniProtKB/Swiss-Prot (Q688D0.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1346..1387
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     exon            326..577
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
     exon            578..684
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
     exon            685..1013
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
     exon            1014..2234
                     /gene="irx4"
                     /gene_synonym="irx4-a; irx4-b; irxa3; Xiro4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cacagagcgctagtgattgcggcgcctggggagtgagtgcgcagtcaggtgtagcgctacacacagacatgcctgcatcatttctggccagtcacaccgtgcgggcatcaagcagcctccagtctacgggaaagccagcggcaagacgctgttagcagtccgcgccctgtacagaggaacctctggacaccaccaatcgattgtaaggggagaggatctcggtgccatcccgctgattaaaggtttcctgccttctcagttatctgggagttgatgtataatgtcatatcctcagtttggctacccatattcctccacacctcagttcttgatgaccaccaattccctttcgacctgctgcgaatccagtggaagaagtctgtccgactcagccgcggcagcttcagcccagaccccggtctattgcccagtgtacgagagcagattgttggcaactgccagacatgaactcaattctgctgcagctttgggtgtctatgggagcccttacaccagtacccaaggatatggaaactatgttacctacggcgctgatgcctctgccttctattctttgaatgcattcgagtcaaaagatggcacaggatctgcgcatgcgggaatcccccagactgctgcttactacccctatgagcacacactcagccagtaccaatatgacaggtatggtaccatggatgggagcacccgaagaaagaacgccactcgtgagaccaccagcaccctaaaagcctggctgcaggagcacaggaagaacccttaccccaccaagggggagaagatcatgctggccataatcaccaagatgaccctcacccaggtctcaacgtggtttgcaaacgctcggaggaggctaaagaaggagaataagatgacctggcctccacgaaacaaatgctcagatgaaaagagaccttatgatgaagaggaagaagaagaagaggaagaagattcccagaaggcaaccatcaaaaacgagaaaaaaattgttgacgaggaagtggccagggaggacaaagccctagatctaagcgacctggaggactttgacgccattgagtctgaaagttctgagtgtgaactgaaacaacccttccatcaccagccccaagatgggcaccaattgaggcagagagattgtgtcaacgatcactgcaaagacgttattctgaagatgccaataactccagctgctaatcaagaactggataggacaaagatctgccacaaacccggggttgaccaatgtgaacaagacgtactaagaggaagacaaagaggtggcgaatctaaagcttgctttcagcaacagcaaatcttggattccaaaccaagaatatggtctctagcccacacagccacctcattaaatcaaactgagtacccatcttgcatgttaaagcaccaaggcttgtcttctccttcttcatcttcatcctcttctgcagtctccacaccagtttgtgtcattgacagacgtcaggattctccagttacaagccttagaaactgggttgatggtgtttttcatgatccattgtttagacacagtactttgaaccaggcactcaccaatactacggtttcgtgggccacgaccaaaggaacactgattgactctggctccttgggacgttctgttgggaatccaactaatgcgatcaagggacagctacctaatataccacatgacacaaataaggagtttattgcattccaaaagtctggaagcaagatgttctgttcctaacataaccttctgaaacccagacgtattccctgcactaataataagtactatagggagatctgtggacaaaaggtgatgctttgaatggcaaaatcatttcaaattttgatttggaaaaacatttatttttatttaaattatctttcctaagaaggcttggtcatgtgaaaactatttaaatatctaaaaagcacaaacgatttaaggctaaagtgtcggagctgttacagtttacaacccaaagtttacaaaggcaacaaggaaaccgaacaatctctactttaagatcttatttaagctgcatgatagattagtttaaggtccatggaaactttttttttttttgacttgttagtgattcacgagcagcacttttatcaagtttacacttatgcacatgctgggcttacctttgcagttcgatttgttctctccaataaattgtctgttacaaaggtaaaaaaaaaaaaaaaaaaaaaaaaa

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