LOCUS       NM_001102413            2490 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus iroquois homeobox 6 (Irx6), mRNA.
ACCESSION   NM_001102413 XM_001064772 XM_226359
VERSION     NM_001102413.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2490)
  AUTHORS   Star,E.N., Zhu,M., Shi,Z., Liu,H., Pashmforoush,M., Sauve,Y.,
            Bruneau,B.G. and Chow,R.L.
  TITLE     Regulation of retinal interneuron subtype identity by the Iroquois
            homeobox gene Irx6
  JOURNAL   Development 139 (24), 4644-4655 (2012)
   PUBMED   23172916
COMMENT     INFERRED REFSEQ: This record is predicted by genome sequence
            analysis and is not yet supported by experimental evidence. The
            reference sequence was derived from CH474037.2.
            
            On or before Aug 24, 2007 this sequence version replaced
            XM_226359.4, XM_001064772.1.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMN14984038
                              [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2490
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="19"
                     /map="19p11"
     gene            1..2490
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="iroquois homeobox 6"
                     /db_xref="GeneID:307715"
                     /db_xref="RGD:1564830"
     exon            1..785
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    675..677
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="upstream in-frame stop codon"
     CDS             741..2072
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="Iroquois related homeobox 6"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-6"
                     /protein_id="NP_001095883.1"
                     /db_xref="GeneID:307715"
                     /db_xref="RGD:1564830"
                     /translation="

MAFPPFGHPYGGASQFLVSASSSATCCETAPRSVSDVASASTSASTLCCAPYDSRLLGSARPELGAALGIYGAPYAAAQSYPGYLTYGPEPPTLCGALNPQYEFKDAAGSFTPSLTQPGAYYPYETTLGQYQYDRYGGVELSSAGRRKNATRESTSALKAWLHEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWVPKNKGGEERKADGGGEDALGCLNGDTKDATASQEAQGLQLSDLEDLEEEEEEEEEEEAEKEEAAVSAARRLVGFPKSAQPLPAPCAAAQEGCLESTECGLAVPRFSFTEAPQSGEADFITAEPSGPTMIVHYPSGHKPRIWSLAHTAASSAVKGAPSTPPRGQSPECHMIPRQPSSVRRLLVPRFSGGEENSPAVKAFGNSTFALQGLPLNCAPCPRRREPEVRFQYPSGAEG"

     misc_feature    <1164..1406
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(1176..1184,1188..1190,1248..1250,1266..1268,
                     1305..1307,1311..1316,1323..1328,1332..1340,1344..1349)
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1176..1178,1185..1187,1314..1316,1323..1328,
                     1335..1337)
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1224..1340
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            786..1034
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
     exon            1035..1144
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
     exon            1145..1452
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
     exon            1453..2067
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
     exon            2068..2490
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

tgtattctctcctccctcgccgccccacttgcctcttgcctcctccgggccgcaggggaggaggcgagcacgctgcaccctgggcccgcacagctcgcagggaggcgtatttcccacttctcctggggaatttggagagggtctgtgcgtgcgcgcgcgcgtgagccgcaggcgaaagcgggtaggatctagcggcgagcagagggtcagggtctttgacgtttctcgccggttgcacaaacctcgcggagcaagaaagagtgtatccgagagtgcgtgcgtgtacacgggctggctgcccttggcacattcggtggcccggggccccggggcccgcggtcccctctggcggcccgggattaccgtgacgtcacattgagcctctggccaccttggactgggacacctccgcaacctcacagcccgacgccgctgcgctgtacctcaccttgccaccgcgcgcctttggtaccctgtaccttcttcttaattctgccgatccatgggcccctctgtcttctggaacgcacaggccgtaggggtgccttcccaaccgcaggactcggcagcccctctgcctttgactctgcctccagactctccccgcgggctaaggaactggcggtcagctcctgcagccctgtaaggaaaccagacaccgcgcgctggtgtcatagaatcaccgacctgagcaagggactcgaaagaaaggggaatcaaatccccgaagaccccctgctatggccttcccgccctttggacacccgtatggcggcgcatcccagtttctggtgtctgcaagttccagtgccacttgctgtgaaacggcccctcggtcagtgtcagatgtggcctcagcctccacctctgcctctactctttgctgtgcaccctatgacagtcggctgctgggcagtgctcggccagagctgggcgctgccttgggcatctatggagcaccttatgcagctgcccagagttacccagggtacctgacctatggcccagagccacctacactgtgtggtgcactgaatcctcagtatgagtttaaggatgctgcaggaagctttactcccagtctgacccagccaggggcctactacccctatgagacaactctggggcagtatcaatatgacaggtatggtggagtggagttgagcagcgctggccgcaggaagaatgccacaagagagagcaccagcgcactgaaggcctggctccacgaacaccgcaagaacccgtaccccactaagggcgagaagatcatgctggccatcatcaccaagatgaccctcacccaggtgtccacctggttcgccaacgcgcgccggcgcctcaagaaggaaaacaaaatgacgtgggtgcccaagaacaagggtggggaggagaggaaagcagatggtggaggagaagacgctctggggtgcctgaatggtgacaccaaagacgctactgccagccaagaggcccaggggctgcagctgagtgacttggaagatctggaggaagaggaggaagaggaggaagaggaagaagcagaaaaagaggaggcagcggtctcagcagcacggaggctggttggttttccgaagagcgcacagcccttgcctgctccctgtgctgccgctcaggagggctgcttggagagcacagagtgcggcttggctgtgccccgcttctcctttactgaagccccacaatcaggggaagctgactttattacagcagagccaagtggccccacgatgatcgtgcactacccaagcggccacaaaccccgcatttggtccttagctcacactgcagcatccagcgctgtcaaaggtgctccctcaactccgcccaggggacaaagtccagagtgccacatgattcccagacagcccagttctgtcaggcgactcctggtccccagattctcgggaggcgaagaaaattctcctgcagtcaaagctttcggaaactccacgttcgctctgcaggggctgccactgaactgtgcaccatgcccgaggcggagagagcctgaagtgcgcttccagtacccatctggagcagaaggttagctcaatgaccgcggtttgcagaagacttttggaaatggctgcttctggattcaccttcatattaagaaaactccaggccttggcagggtctgggagctctctcactttgcctaagacacacacacagaaccatccttgcacgccgggctggggctagccagacagacatgtacctaatcagacttggaggggagatggccttggggaaagccctgtgtgtgctcacagggtactcttaccaagtctctcttcctcctgtggatggaggtcccgaagagcatctcctcctgttcacccacccctgcccagtccactcactgtgtaactttcttgttgaaatggtctccaaggactgtctgtgtcttcttcctctccgtttttcctgacccaggttataccttcaaaaaatgactaagct

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