LOCUS       NM_001030338            1815 bp    mRNA    linear   VRT 23-SEP-2023
DEFINITION  Gallus gallus iroquois homeobox 1 (IRX1), mRNA.
ACCESSION   NM_001030338 XM_419063
VERSION     NM_001030338.2
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 1815)
  AUTHORS   Tang H, Finn RD and Thomas PD.
  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 1815)
  AUTHORS   Freese NH, Lam BA, Staton M, Scott A and Chapman SC.
  TITLE     A novel gain-of-function mutation of the proneural IRX1 and IRX2
            genes disrupts axis elongation in the Araucana rumpless chicken
  JOURNAL   PLoS One 9 (11), e112364 (2014)
   PUBMED   25372603
  REMARK    GeneRIF: A novel gain-of-function mutation of the proneural IRX1
            and IRX2 genes disrupts axis elongation in the Araucana rumpless
            chicken.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1815)
  AUTHORS   Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C,
            Mitchell A, Sangrador-Vegas A, Yong SY, 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   4  (bases 1 to 1815)
  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
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAENSK010000042.1.
            
            On Sep 23, 2021 this sequence version replaced NM_001030338.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AJ238354.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992393, SAMEA103992428
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-320               JAENSK010000042.1  639109-639428
            321-1335            JAENSK010000042.1  641767-642781
            1336-1402           JAENSK010000042.1  643422-643488
            1403-1815           JAENSK010000042.1  643895-644307
FEATURES             Location/Qualifiers
     source          1..1815
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..1815
                     /gene="IRX1"
                     /note="iroquois homeobox 1"
                     /db_xref="CGNC:9961"
                     /db_xref="GeneID:374185"
     exon            1..320
                     /gene="IRX1"
                     /inference="alignment:Splign:2.1.0"
     CDS             57..1460
                     /gene="IRX1"
                     /note="iroquois homeobox protein 1; iroquois homologue-1"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-1"
                     /protein_id="NP_001025509.2"
                     /db_xref="CGNC:9961"
                     /db_xref="GeneID:374185"
                     /translation="

MSFPQLGYPQYLSASQAVYGSERPGVLAAAAAAAAAAAAASGRPAGAELGSGSAAVTSVLGMYAGPYSAPNYSAFLPYTADLGLFSQMGSQYELKDNPGVHPATFAAHTAPGYYPYGQFQYGDPGRPKNATRESTSTLKAWLNEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKVTWGSRSKDQEDANLFGSDNEGDPEKTEDDEEIDLESIDIDKIDENDGEQSNEEEEEKPELLRQSSEEERLEKDKELSLSGSEGLKPKDALAMVKEASDNSTRIISPGGQSNLQMPSHSKPKIWSLAETATSPDGALKSSPPPPPPAQVTHTSPQIQHPAFLPSHGLYTCQIGKFHNWTNGAFLTQSSLLNVRSFLGVNHHHATHHNHHLQAQQQPSVLTATLGALSSEKPSERTSPKHIENVPRTDSPPQPLKSPFQPVRDNSLPQQEGTPRILTALPSA"

     misc_feature    <411..>647
                     /gene="IRX1"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    480..596
                     /gene="IRX1"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    960..1013
                     /gene="IRX1"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     exon            321..1335
                     /gene="IRX1"
                     /inference="alignment:Splign:2.1.0"
     exon            1336..1402
                     /gene="IRX1"
                     /inference="alignment:Splign:2.1.0"
     exon            1403..1815
                     /gene="IRX1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

atatttctgccgctcctgccgccgacgccagtgctgccagtgccgccgccccggagatgtccttcccccagctgggctacccgcagtacctcagcgccagccaggcggtgtacggcagcgagcggcccggggtgctggccgccgccgccgcagccgccgcagccgccgccgccgcctcgggccggcccgcgggcgccgaactgggcagcggctcggccgctgtcacctcggtgctgggcatgtacgcggggccctacagcgcccccaactacagcgccttcctgccctacaccgccgacctcggcctcttctcgcagatgggctcccagtacgagctgaaagataatccgggtgtccatcctgctaccttcgcagcccacaccgcccccggctattatccctacggacagttccagtacggggacccggggcgacccaaaaatgccacccgggagagtaccagcaccctcaaggcctggctcaatgaacaccgcaagaacccctaccctaccaagggcgagaagatcatgctggccatcatcaccaagatgaccctcacccaggtctccacctggttcgccaacgcccgccgccgcctcaagaaggagaacaaggtgacctggggctccaggagtaaggaccaagaagatgctaacctttttggcagcgataacgagggggaccctgagaagaccgaagacgatgaggagatcgacctggagagcatagacatagataaaattgatgaaaacgatggggaacagagcaatgaggaagaggaggagaagcctgagctcctgagacaaagcagtgaagaggagcgcttggaaaaagacaaggaattgtcactgtcaggatctgaagggctgaaacccaaagatgctctggccatggtgaaggaggcctctgacaacagcacgcgaatcattagccccgggggacagagcaatttacagatgccatctcacagcaaacccaagatctggtctttggcagagactgcgaccagccctgatggtgccctgaaatcctcccccccaccacctccccctgcccaggtcacccacacttcgccacagatccagcatcccgcctttctccccagccatggactctacacgtgccagattggcaagtttcacaactggacaaatggggcttttctcacgcagagttccctgctaaacgtgaggtcgtttttgggagtaaatcaccaccatgccactcaccacaaccaccacctccaggcccagcagcagccttctgttttaacagccaccctgggagccctaagcagtgaaaagccttcagagaggaccagtcccaaacacatagaaaatgtcccaagaaccgattccccacctcagccactcaaatcgcccttccagcctgtccgtgacaactctttgcctcagcaagagggaacaccgagaattttaacagctctcccttcggcttgattaaatggtttgctgaaaaacaaaatattacagagactggtcttaaggacagaaaaacaaaacaaaaagaaaaaaaaaaaaaaggaaactgtataaacgactctcatccatctcttttttgcaataaggtggtgcaaatccattaaggcgattaaacaattctgtagatggatcccctccttcattgtaccatttcagatcgtgttattctaaccattcttggattatttgtttggtaaatgtttcccatgtgtttgtgttttttctgtatatagagtgatttcagattgtaaatagcgcgtcagcaaaacttgtctaaatcatatatttttgtctaataaactaaatgaaatta

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