LOCUS       NM_207185               1707 bp    mRNA    linear   VRT 24-APR-2024
DEFINITION  Danio rerio iroquois homeobox 1a (irx1a), transcript variant 2,
            mRNA.
ACCESSION   NM_207185
VERSION     NM_207185.2
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 1707)
  AUTHORS   England,S.J., Rusnock,A.K., Mujcic,A., Kowalchuk,A., de Jager,S.,
            Hilinski,W.C., Juarez-Morales,J.L., Smith,M.E., Grieb,G.,
            Banerjee,S. and Lewis,K.E.
  TITLE     Molecular analyses of zebrafish V0v spinal interneurons and
            identification of transcriptional regulators downstream of Evx1 and
            Evx2 in these cells
  JOURNAL   Neural Dev 18 (1), 8 (2023)
   PUBMED   38017520
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1707)
  AUTHORS   Wesselman,H.M., Gatz,A.E., Pfaff,M.R., Arceri,L. and Wingert,R.A.
  TITLE     Estrogen Signaling Influences Nephron Segmentation of the Zebrafish
            Embryonic Kidney
  JOURNAL   Cells 12 (4), 666 (2023)
   PUBMED   36831333
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1707)
  AUTHORS   Weaver,N.E., Healy,A. and Wingert,R.A.
  TITLE     gldc Is Essential for Renal Progenitor Patterning during Kidney
            Development
  JOURNAL   Biomedicines 10 (12), 3220 (2022)
   PUBMED   36551976
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1707)
  AUTHORS   Hehr,C.L., Halabi,R. and McFarlane,S.
  TITLE     Spatial regulation of amacrine cell genesis by Semaphorin 3f
  JOURNAL   Dev Biol 491, 66-81 (2022)
   PUBMED   36058267
REFERENCE   5  (bases 1 to 1707)
  AUTHORS   Halabi,R., Cechmanek,P.B., Hehr,C.L. and McFarlane,S.
  TITLE     Semaphorin3f as a cardiomyocyte derived regulator of heart chamber
            development
  JOURNAL   Cell Commun Signal 20 (1), 126 (2022)
   PUBMED   35986301
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1707)
  AUTHORS   Lecaudey,V., Anselme,I., Dildrop,R., Ruther,U. and
            Schneider-Maunoury,S.
  TITLE     Expression of the zebrafish Iroquois genes during early nervous
            system formation and patterning
  JOURNAL   J Comp Neurol 492 (3), 289-302 (2005)
   PUBMED   16217788
REFERENCE   7  (bases 1 to 1707)
  AUTHORS   Glavic,A., Maris Honore,S., Gloria Feijoo,C., Bastidas,F.,
            Allende,M.L. and Mayor,R.
  TITLE     Role of BMP signaling and the homeoprotein Iroquois in the
            specification of the cranial placodal field
  JOURNAL   Dev Biol 272 (1), 89-103 (2004)
   PUBMED   15242793
REFERENCE   8  (bases 1 to 1707)
  AUTHORS   Dildrop,R. and Ruther,U.
  TITLE     Organization of Iroquois genes in fish
  JOURNAL   Dev Genes Evol 214 (6), 267-276 (2004)
   PUBMED   15133664
REFERENCE   9  (bases 1 to 1707)
  AUTHORS   Feijoo,C.G., Manzanares,M., de la Calle-Mustienes,E.,
            Gomez-Skarmeta,J.L. and Allende,M.L.
  TITLE     The Irx gene family in zebrafish: genomic structure, evolution and
            initial characterization of irx5b
  JOURNAL   Dev Genes Evol 214 (6), 277-284 (2004)
   PUBMED   15064948
REFERENCE   10 (bases 1 to 1707)
  AUTHORS   Cheng,C.W., Hui,C., Strahle,U. and Cheng,S.H.
  TITLE     Identification and expression of zebrafish Iroquois homeobox gene
            irx1
  JOURNAL   Dev Genes Evol 211 (8-9), 442-444 (2001)
   PUBMED   11685579
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CABZ01062628.1.
            
            On Aug 8, 2023 this sequence version replaced NM_207185.1.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY043241.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505371, SAMEA3505372
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-443               CABZ01062628.1     3953-4395           c
            444-1356            CABZ01062628.1     1731-2643           c
            1357-1707           CABZ01062628.1     188-538             c
FEATURES             Location/Qualifiers
     source          1..1707
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="16"
                     /map="16"
     gene            1..1707
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /note="iroquois homeobox 1a"
                     /db_xref="GeneID:403019"
                     /db_xref="ZFIN:ZDB-GENE-040707-1"
     exon            1..443
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    84..86
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /note="upstream in-frame stop codon"
     CDS             207..1466
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /note="isoform 2 is encoded by transcript variant 2;
                     iroquois homeobox protein 1, a"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-1a
                     isoform 2"
                     /protein_id="NP_997068.2"
                     /db_xref="GeneID:403019"
                     /db_xref="ZFIN:ZDB-GENE-040707-1"
                     /translation="

MSFPQLGYPQYLSASQAVYGGDRPGVLTPSSRAGSAEIGGSASAAAAAVSSVLGMYPYAHNYSAFLPYTSADLALFSQMGSQYDLKDSPGVHPASFAAHTSPAFYPYGQFQYGDPARPKNATRESTSTLKAWLNEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKVTWGARSKDDENIFGSDNEGDAEKNEDEEEIDLESIDIDKIDDNDGDQSNEEDEDKRAELESLQEKRHASKEPSDGNNNTTRVLSPGRQGGFQVPVSNKPKIWSLAETATSPDSAQKPTSPSVPVSHPAFLPSHGLYTCQIGKFHNWTNGAFLGQNSLLNVRSFLGVNQHNHPAQQQQQQTGPASLQVLSAGNTDKMPEDLSPKHIVPETSRNQHRGSSQRCPPLDQHICTPKRTDGTNNGH"

     misc_feature    603..719
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    <1032..1073
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     exon            444..1356
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1357..1707
                     /gene="irx1a"
                     /gene_synonym="irx1; zgc:109702; zgc:136490; ziro1;
                     ziro1a"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cccaggacctaggggcagagacatcagttggagctcaattgttgatctgatcacatccgacggacttgctgcagaagagaagctgagatttaaagacgagcgctttcccgttcgcttttcagagagagagagaaactcttgcacttctcgctttggtgggttatttgcttttttgcctggttttggcttccgacgtggcggaggagatgtctttcccccagctgggctacccgcagtatttaagtgcctcccaggcggtgtacggaggcgaccgaccgggagttctgactccgtcgtcccgcgcagggagcgctgagatcgggggtagcgcgtctgcggccgccgctgcggtgtcctcggtgttgggcatgtacccgtacgcacacaactacagcgcctttctgccttacaccagcgccgatctggctcttttctcccaaatgggctctcagtatgatctgaaagacagccctggagtccaccctgccagcttcgctgcccacacgagtcctgccttctacccctacggccagttccagtacggagaccccgccaggcccaaaaacgccacccgggagagcaccagcaccctgaaggcctggctgaacgagcacaggaaaaacccctatcccaccaaaggagagaagatcatgctggccatcatcaccaagatgaccctcacgcaagtgtccacctggttcgccaacgctagaaggagactcaagaaggagaacaaggtgacctggggcgccaggagcaaggacgacgagaacatttttggaagcgataacgaaggagacgccgaaaagaacgaggacgaagaggagatagatctggagagcatagatatcgataaaatcgacgacaacgatggcgatcagagcaacgaggaggacgaggacaagcgcgcggagctggagagcctccaggagaagcgacacgcgtccaaagagccgtcggatggcaacaacaacaccactagagtactgtcgcccggtcgacagggcggttttcaagttccggttagcaataagcccaaaatatggtcgttggcagaaacagcgaccagtcccgatagcgcgcagaaacctacgtcaccttccgttcccgtcagccacccggccttcctgcccagccacggactgtacacgtgccagatcggcaagttccacaactggacgaacggcgcgtttctgggacaaaactctctgctaaatgtgcgctctttcctgggcgtcaaccagcacaaccacccggcgcagcagcagcagcagcagacggggcccgcgtccctgcaggtgctgtcggccgggaacacggacaagatgccggaggacctgagtccaaaacacatagtcccagaaaccagcaggaatcaacacagagggtcctcacagcgctgtcctccgcttgatcaacacatttgcacccccaaaaggactgatggcactaataatggacactgaaagcgaaatcaattcagcgtagcgttgagtctctctaaaacaaccggccgctggagttgtacataatgacacctgtgatccctcccttaccgtgggacattggtaggcgtactttgtctttatgtgttggtgttttcctttaaggtgacccaccatttgtaaatagcgagttgacggagtttgtccagatcatatattttgtctaataaactaaatgaaattatagacacattcattcaga

//