LOCUS       NM_001030336            2870 bp    mRNA    linear   VRT 24-SEP-2023
DEFINITION  Gallus gallus iroquois homeobox 2 (IRX2), mRNA.
ACCESSION   NM_001030336 XM_419062
VERSION     NM_001030336.2
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 2870)
  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 2870)
  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 2870)
  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 2870)
  AUTHORS   Matsumoto K, Nishihara S, Kamimura M, Shiraishi T, Otoguro T,
            Uehara M, Maeda Y, Ogura K, Lumsden A and Ogura T.
  TITLE     The prepattern transcription factor Irx2, a target of the FGF8/MAP
            kinase cascade, is involved in cerebellum formation
  JOURNAL   Nat Neurosci 7 (6), 605-612 (2004)
   PUBMED   15133517
  REMARK    GeneRIF: Irx2 is expressed in the presumptive cerebellum. When Irx2
            is misexpressed with Fgf8, the midbrain develops into cerebellum in
            conjunction with repression of Otx2 and induction of Gbx2.
REFERENCE   5  (bases 1 to 2870)
  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   6  (bases 1 to 2870)
  AUTHORS   Goriely A, Diez del Corral R and Storey KG.
  TITLE     c-Irx2 expression reveals an early subdivision of the neural plate
            in the chick embryo
  JOURNAL   Mech Dev 87 (1-2), 203-206 (1999)
   PUBMED   10495288
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000042.1.
            
            On Dec 9, 2021 this sequence version replaced NM_001030336.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AJ237599.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992393, SAMEA103992428
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-343               JAENSK010000042.1  139920-140262       c
            344-749             JAENSK010000042.1  137858-138263       c
            750-1490            JAENSK010000042.1  136848-137588       c
            1491-2870           JAENSK010000042.1  134740-136119       c
FEATURES             Location/Qualifiers
     source          1..2870
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..2870
                     /gene="IRX2"
                     /note="iroquois homeobox 2"
                     /db_xref="CGNC:48986"
                     /db_xref="GeneID:373975"
     exon            1..343
                     /gene="IRX2"
                     /inference="alignment:Splign:2.1.0"
     CDS             101..1534
                     /gene="IRX2"
                     /function="transcription factor"
                     /note="iroquois homeobox protein 2; iroquois homologue 2"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-2"
                     /protein_id="NP_001025507.1"
                     /db_xref="CGNC:48986"
                     /db_xref="GeneID:373975"
                     /translation="

MSYPQGYLYQPPGSLALYSCPAYGASALAAPRSEELARSSSGSAFSPYPGSAAFTAQAAATGFTSPLQYSTDPATGFPSYMGSPYDAHTTGMTGAISYHPYGSPAYPYQLNDPAYRKNATRDATATLKAWLQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWAPRNKSEDEDDDDGDGARSKEESPDKIPESNETSAEDEGISLQVDSLTDHSCSAESDGEKLPCRAGDPLCESGSECKDKYEDIEEEEEDEDDDEEDIEEDDGGGGERDPPAKPATSSPLAAVEAPLLGHPHADAARSASKAALGGRASPGPPTPASKPKLWSLAEIATSDLKSQNLGQGCPPAALASATPASAPHSAAYSPSSLLGRHIYYTSPFYSNYTNYGNFNALQSQGILRYNSAAVASNEGLSQTVLNASSVHKQSSDSLKTITNQLEQHYRPSSYDSKKDPTEVCTVGVQPYL"

     misc_feature    353..>625
                     /gene="IRX2"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(446..451,455..457,515..517,533..535,572..574,
                     578..583,590..595,599..607,611..616)
                     /gene="IRX2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(452..454,581..583,590..595,602..604)
                     /gene="IRX2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    491..607
                     /gene="IRX2"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    <956..>1237
                     /gene="IRX2"
                     /note="DNA polymerase III subunit gamma/tau; Region:
                     PRK12323; cl46901"
                     /db_xref="CDD:481241"
     exon            344..749
                     /gene="IRX2"
                     /inference="alignment:Splign:2.1.0"
     exon            750..1490
                     /gene="IRX2"
                     /inference="alignment:Splign:2.1.0"
     exon            1491..2870
                     /gene="IRX2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gggagagagggagagcacgaaagcagcgccgggagcagcggcagcagcagggccggtcaccctcgccccctccctgctcctgtgctcgccagcgcaagccatgtcctatcctcagggttacctctaccagccccccggctcgctggctctgtactcctgcccggcgtacggagcgtcggcgctggcggcccccaggagcgaggagctggccaggtcttcgtcgggctcggcgttcagcccttatccgggatcggcagctttcaccgcccaggcggcggccacaggcttcaccagcccgctccagtactccacagaccccgccacgggattcccctcctacatgggctccccttacgacgcccatacgacggggatgaccggggccatcagctaccacccgtacggcagccctgcctacccctaccagctcaacgaccccgcgtacaggaagaatgccacccgcgacgccacggccacgctgaaggcctggctgcaggagcaccgcaagaacccctaccccaccaagggcgagaagatcatgctggccatcatcaccaagatgaccctcacccaggtctccacctggtttgccaacgcccgccgccgcctcaagaaggagaacaagatgacgtgggccccgcggaacaagagtgaggacgaggacgacgacgatggcgacggggcgaggagtaaagaggagagccctgacaagatacccgagagcaacgagacctccgccgaggacgaagggatcagcttgcaagtggactcgctgacggaccactcgtgctccgccgagtcggacggcgagaagctgccgtgccgggccggcgaccccctgtgcgagtcgggttcggagtgcaaggacaagtacgaggacatcgaagaggaagaggaagacgaggacgatgacgaggaggacatcgaggaggacgacggcggcggcggggagcgcgacccgccggccaagccagccacctcctcgcctctggccgccgtggaggcccctctgctcggccacccgcacgccgacgccgcccgcagcgccagcaaggcggcgctgggcggccgcgcctcccccgggcccccgacgccggccagcaagcccaagctctggtcgctggccgaaatcgccacctcggacctcaagagccagaacttgggccaaggctgcccgccggcagcgttggcctcggccacccccgcctccgccccgcacagcgctgcctactctccctcctcccttctggggaggcatatttattacacctcacctttttatagcaattacacaaactatgggaactttaacgctctccagagccaggggatcctgagatacaactcggcggcagtggcttcaaacgagggactcagtcagactgtcctaaatgccagctctgtccacaagcagagcagtgactctttgaaaacgatcactaaccagctagaacaacattacaggccctctagttatgactctaagaaagatcccactgaagtctgcacagtaggagtacaaccatacctatagaagtacaatcacgcagcaatgcaagtaagtgagagcgttttctattacgctgatcatttggcaccaggtctaagacagcgcgcagatcgagacttgcttagtgttaatttcttgcttcattacatgaggctctgattacagagtaagacactcttttctgctatttttaagcctctcattacagcttttctttctcgtgtttgtcttcattttaaagtcaggttagacttccttcacctcgcgtactctttgcttgtgtgaggcaaacctgaaaggactatttaaatgctaaggaaaagcaagcttgaaagaatatttttgaaggcgttgttcagaaaagttctcgtgctcacgtggcagtgctgcaatggcacattttaagcgaggtttcgcacggcgatcgtgtatttgaaatgagaagggacgattatcagagatccacatgcatttcagcagggtgtgttgtctgtgacttgctccttgcccggctatcagttcagtgcttaataccccccattacctgggggggctaaagaaacaaaaaaaaatcaccttgtcgatacttttccttttcttttttctttctttcttttatttattttattttattttttgttaggagaaaaaaaagtagacgagtaagagttttgccttacttccagtatttttcgagtttaatggcgttagtgtgcaattgaaggatttttggatgatctggttttttccttggtccacaggtaggtgtcacaattgctttgaaaaaagtcagcaagccatcatctctccctgagctaatatatataacaaatctctaaatccggatcacatcttgtgccactgtataaaagaagaccacagagcactattaaatcttcagactctaattattaaaccagaattttgtcggacataatgtgagtttgctggtatagtatagtttccccaatgtacgtgtgacttttgaaaacagatctgtttttctcaggatatctcgaattgatcacttcattgccacggtatatattcgataggtgtgataggatttattgtaaaatttatttgtaaaagatgtatacagtagagataataaagacgtgattggagaacttgagtccttacaaagtggaaacaaatttgatatttatttttgtaacgatataaagcttctagtaatttatgcaagttgtattgcaatggaatctgaactttttgtaaataaattttgcctggtttttatttgaaacgttgatggttatacaatctttggttgtttaacgagaattctttactaatttatatctctaattgtaaataaaaacagactagtctgcaacaa

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