LOCUS       NM_001001744            2168 bp    mRNA    linear   VRT 13-OCT-2024
DEFINITION  Gallus gallus iroquois homeobox 4 (IRX4), mRNA.
ACCESSION   NM_001001744
VERSION     NM_001001744.2
KEYWORDS    RefSeq.
SOURCE      Gallus gallus (chicken)
  ORGANISM  Gallus gallus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
            Phasianidae; Phasianinae; Gallus.
REFERENCE   1  (bases 1 to 2168)
  AUTHORS   Tang,H., Finn,R.D. and Thomas,P.D.
  TITLE     TreeGrafter: phylogenetic tree-based annotation of proteins with
            Gene Ontology terms and other annotations
  JOURNAL   Bioinformatics 35 (3), 518-520 (2019)
   PUBMED   30032202
REFERENCE   2  (bases 1 to 2168)
  AUTHORS   Burge,S., Kelly,E., Lonsdale,D., Mutowo-Muellenet,P., McAnulla,C.,
            Mitchell,A., Sangrador-Vegas,A., Yong,S.Y., Mulder,N. and Hunter,S.
  TITLE     Manual GO annotation of predictive protein signatures: the InterPro
            approach to GO curation
  JOURNAL   Database (Oxford) 2012, bar068 (2012)
   PUBMED   22301074
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2168)
  AUTHORS   Ogura,K., Matsumoto,K., Kuroiwa,A., Isobe,T., Otoguro,T.,
            Jurecic,V., Baldini,A., Matsuda,Y. and Ogura,T.
  TITLE     Cloning and chromosome mapping of human and chicken Iroquois (IRX)
            genes
  JOURNAL   Cytogenet Cell Genet 92 (3-4), 320-325 (2001)
   PUBMED   11435706
REFERENCE   4  (bases 1 to 2168)
  AUTHORS   Bao,Z.Z., Bruneau,B.G., Seidman,J.G., Seidman,C.E. and Cepko,C.L.
  TITLE     Regulation of chamber-specific gene expression in the developing
            heart by Irx4
  JOURNAL   Science 283 (5405), 1161-1164 (1999)
   PUBMED   10024241
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAENSK010000041.1.
            
            On Sep 23, 2021 this sequence version replaced NM_001001744.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF091504.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3109051 [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-168               JAENSK010000041.1  8365997-8366164     c
            169-234             JAENSK010000041.1  8361774-8361839     c
            235-486             JAENSK010000041.1  8360666-8360917     c
            487-593             JAENSK010000041.1  8360463-8360569     c
            594-916             JAENSK010000041.1  8359660-8359982     c
            917-2168            JAENSK010000041.1  8358229-8359480     c
FEATURES             Location/Qualifiers
     source          1..2168
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..2168
                     /gene="IRX4"
                     /note="iroquois homeobox 4"
                     /db_xref="CGNC:15827"
                     /db_xref="GeneID:373974"
     exon            1..168
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    160..162
                     /gene="IRX4"
                     /note="upstream in-frame stop codon"
     exon            169..234
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
     CDS             190..1647
                     /gene="IRX4"
                     /note="iroquois homeobox protein 4"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-4"
                     /protein_id="NP_001001744.1"
                     /db_xref="CGNC:15827"
                     /db_xref="GeneID:373974"
                     /translation="

MSYPQFGYPYSSAPQFLMSTNSLTPCCESGGRTLPESGPAAPAQTPVYCPVYESRLLATARHELNSAAALGVYGGPYGGPQGYGNYVTYGTEAPAFYSLNTLEAKDGGGSAHAGISPAAAYYPYEHSLSQYQYDRYGAMDGGTRRKNATRETTSTLKAWLQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWPPRNKCSDEKRPYEEEEEEEEECSQEDAMKSEKAEEPTGKEEKELELSDLEDLDAAESESSECEMRRPFPHPHPHPLPGGGPPPRAAEPPAAAAEEEEEEAAERARGCLKPAAEECEAALLGARPRGCEAKLCFPQGQPLLEAKPRIWSLAHTATSLNQAEYPSCMLKRSGGSAAAAVSAPVSVMDRHQDSPVTNLRNWVDGVFHDPLFRHSTLNQALSNTTVSWATTKGAILETGALGRSVGNGANVLKGQLANLAHQDSSKEFLAFPKAGSKMFCS"

     misc_feature    <619..924
                     /gene="IRX4"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(619..627,631..633,691..693,709..711,748..750,
                     754..759,766..771,775..783,787..792)
                     /gene="IRX4"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(619..621,628..630,757..759,766..771,778..780)
                     /gene="IRX4"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    667..783
                     /gene="IRX4"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    805..1128
                     /gene="IRX4"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9YGS0.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1228..1278
                     /gene="IRX4"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     exon            235..486
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
     exon            487..593
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
     exon            594..916
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
     exon            917..2168
                     /gene="IRX4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gtggtggcggcggcgccgggggagcggaggcactgcgcgctgccgtcaggtgccgcacgctgagaaatgcgcgcggcggctccgcgcagcgatccgcgcagagagcgggaggagaggagcgctgccatggcactgcgaggcgctagccggagccgggcgtgatcgcagatcaccgggagcctctggaccatgtcctacccgcagttcggctatccctactcctccgcgccccagttcctgatgagcaccaactccctgacgccctgctgcgagtccggcggccgcacgctgcccgagtcgggcccggccgccccagcacagacgccggtctattgtcccgtctacgagagccgcctgctcgccaccgctcgccacgagctcaactccgccgccgctctgggggtctacggcggcccctacggcggcccccagggctacgggaactacgtgacctacggcaccgaggcgcccgccttctactctctgaacactttggaggcgaaggacggcggcggctctgcgcatgcgggcatctccccggcggctgcttactacccgtacgagcacagcctcagccagtaccagtacgacaggtacggggcgatggacggcggcacgcggcggaagaacgccacccgggagaccaccagcacgctgaaggcctggctgcaggagcaccgcaagaacccctaccccaccaagggcgagaagatcatgctggccatcatcaccaagatgaccctcacccaggtctccacctggtttgccaacgcccgccgccgcctcaagaaggagaacaagatgacgtggccgcctcggaacaagtgctcggacgaaaagcggccctacgaagaagaggaggaggaggaggaggaatgctcgcaggaagacgccatgaagagcgagaaggccgaggagcccacgggcaaggaggagaaggagctggagctcagcgacctggaggatttggacgccgccgagtcggagagctccgagtgcgagatgaggcggcccttcccgcacccgcatcctcacccgctgccgggcggcggccccccgccccgcgccgccgagccccccgccgccgccgccgaggaggaggaggaggaggcggcggagagggcccgcggctgcctgaagccggcggcggaggagtgcgaggcggccctgctcggggctcggccgcgcggctgcgaggccaagctgtgcttcccgcagggccagccgctgctggaggccaagccccgcatctggtccctggcgcacaccgccacctccctcaaccaggccgagtacccctcctgcatgctgaagcggtcggggggatcggccgccgccgccgtctccgccccggtcagcgtcatggaccggcaccaggattcgccggtcaccaacctcaggaactgggtggacggggtgtttcacgacccgctgttcaggcacagtactttgaatcaagccttgagcaacaccacggtgtcctgggccaccaccaaaggagccattctggaaacgggcgccttgggacgctcggtgggcaatggtgccaacgtgctcaaggggcagctggccaacctggcccaccaggactcgagcaaggagtttctcgcctttcccaaagcagggagcaaaatgttttgctcctaacggccccccgaggggcaaagaacttccccgcgctggaagagtcatgtacactgaaaagaaactcgcgagagttgaaatataaaactttttcctttattcttatttttcttttttttttttttaacaaccaaaacgaggatttaacgttcagttcgctcagctcaacagacactgctgttctgaagaattaatttctcctggctgcgaattcaaagggatcagtgtcgtgagagttatttaattccatgtcccaaagcacgtactatagcgtagacctacttaacaaagtttacatccgaaagtttacagacgagaaattttaattcagctttaatttaaggcatgccgacattagttataaagacttttcgagagtttttcctcctgatttccttgttagcatataattcacaaacagcacttccactaagtttacacctactgcacaaatttatcttgacaaaaaaaaaaaaaatgttaaagggtatgttcactccaataaatggtctgtttcagaggta

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