LOCUS       NM_001434430            2496 bp    mRNA    linear   ROD 28-OCT-2024
DEFINITION  Rattus norvegicus iroquois homeobox 6 (Irx6), transcript variant 2,
            mRNA.
ACCESSION   NM_001434430 XM_063278003
VERSION     NM_001434430.1
KEYWORDS    RefSeq; RefSeq Select.
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 2496)
  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     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000019.1.
            
            On Oct 26, 2024 this sequence version replaced XM_063278003.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360190.1665034.1,
                                           SRR26360172.2050356.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN14984031, SAMN14984038
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-785               JAXUCZ010000019.1  30508598-30509382   c
            786-1034            JAXUCZ010000019.1  30507499-30507747   c
            1035-1144           JAXUCZ010000019.1  30506809-30506918   c
            1145-1452           JAXUCZ010000019.1  30506343-30506650   c
            1453-2067           JAXUCZ010000019.1  30505008-30505622   c
            2068-2496           JAXUCZ010000019.1  30503416-30503844   c
FEATURES             Location/Qualifiers
     source          1..2496
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="19"
                     /map="19p11"
     gene            1..2496
                     /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..2075
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /note="isoform 2 is encoded by transcript variant 2;
                     Iroquois related homeobox 6; iroquois-class homeodomain
                     protein IRX-6"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-6 isoform
                     2"
                     /protein_id="NP_001421359.1"
                     /db_xref="GeneID:307715"
                     /db_xref="RGD:1564830"
                     /translation="

MAFPPFGHPYGGASQFLVSASSSATCCETAPRSVSDVASASTSASTLCCAPYDSRLLGSARPELGAALGIYGAPYAAAQSYPGYLTYGPEPPTLCGALNPQYEFKDAAGSFTPSLTQPGAYYPYETTLGQYQYDRYGGVELSSAGRRKNATRESTSALKAWLHEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWVPKNKGGEERKADGGGEDALGCLNGDTKDATASQEAQGLQLSDLEDLEEEEEEEEEEEAEKEEAAVSAARRLVGFPKSAQPLPAPCAAAQEGCLESTECGLAVPRFSFTEAPQSGEADFITAEPSGPTMIVHYPSGHKPRIWSLAHTAASSAVKGAPSTPPRGQSPECHMIPRQPSSVRRLLVPRFSGGEENSPAVKAFGNSTFALQGLPLNCAPCPRRREPEVRFQYPSGAEAG"

     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..2496
                     /gene="Irx6"
                     /gene_synonym="RGD1564830"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

tgtattctctcctccctcgccgccccacttgcctcttgcctcctccgggccgcaggggaggaggcgagcacgctgcaccctgggcccgcacagctcgcagggaggcgtatttcccacttctcctggggaatttggagagggtctgtgcgtgcgcgcgcgcgtgagccgcaggcgaaagcgggtaggatctagcggcgagcagagggtcagggtctttgacgtttctcgccggttgcacaaacctcgcggagcaagaaagagtgtatccgagagtgcgtgcgtgtacacgggctggctgcccttggcacattcggtggcccggggccccggggcccgcggtcccctctggcggcccgggattaccgtgacgtcacattgagcctctggccaccttggactgggacacctccgcaacctcacagcccgacgccgctgcgctgtacctcaccttgccaccgcgcgcctttggtaccctgtaccttcttcttaattctgccgatccatgggcccctctgtcttctggaacgcacaggccgtaggggtgccttcccaaccgcaggactcggcagcccctctgcctttgactctgcctccagactctccccgcgggctaaggaactggcggtcagctcctgcagccctgtaaggaaaccagacaccgcgcgctggtgtcatagaatcaccgacctgagcaagggactcgaaagaaaggggaatcaaatccccgaagaccccctgctatggccttcccgccctttggacacccgtatggcggcgcatcccagtttctggtgtctgcaagttccagtgccacttgctgtgaaacggcccctcggtcagtgtcagatgtggcctcagcctccacctctgcctctactctttgctgtgcaccctatgacagtcggctgctgggcagtgctcggccagagctgggcgctgccttgggcatctatggagcaccttatgcagctgcccagagttacccagggtacctgacctatggcccagagccacctacactgtgtggtgcactgaatcctcagtatgagtttaaggatgctgcaggaagctttactcccagtctgacccagccaggggcctactacccctatgagacaactctggggcagtatcaatatgacaggtatggtggagtggagttgagcagcgctggccgcaggaagaatgccacaagagagagcaccagcgcactgaaggcctggctccacgaacaccgcaagaacccgtaccccactaagggcgagaagatcatgctggccatcatcaccaagatgaccctcacccaggtgtccacctggttcgccaacgcgcgccggcgcctcaagaaggaaaacaaaatgacgtgggtgcccaagaacaagggtggggaggagaggaaagcagatggtggaggagaagacgctctggggtgcctgaatggtgacaccaaagacgctactgccagccaagaggcccaggggctgcagctgagtgacttggaagatctggaggaagaggaggaagaggaggaagaggaagaagcagaaaaagaggaggcagcggtctcagcagcacggaggctggttggttttccgaagagcgcacagcccttgcctgctccctgtgctgccgctcaggagggctgcttggagagcacagagtgcggcttggctgtgccccgcttctcctttactgaagccccacaatcaggggaagctgactttattacagcagagccaagtggccccacgatgatcgtgcactacccaagcggccacaaaccccgcatttggtccttagctcacactgcagcatccagcgctgtcaaaggtgctccctcaactccgcccaggggacaaagtccagagtgccacatgattcccagacagcccagttctgtcaggcgactcctggtccccagattctcgggaggcgaagaaaattctcctgcagtcaaagctttcggaaactccacgttcgctctgcaggggctgccactgaactgtgcaccatgcccgaggcggagagagcctgaagtgcgcttccagtacccatctggagcagaagcaggttagctcaatgaccgcggtttgcagaagacttttggaaatggctgcttctggattcaccttcatattaagaaaactccaggccttggcagggtctgggagctctctcactttgcctaagacacacacacagaaccatccttgcacgccgggctggggctagccagacagacatgtacctaatcagacttggaggggagatggccttggggaaagccctgtgtgtgctcacagggtactcttaccaagtctctcttcctcctgtggatggaggtcccgaagagcatctcctcctgttcacccacccctgcccagtccactcactgtgtaactttcttgttgaaatggtctccaaggactgtctgtgtcttcttcctctccgtttttcctgacccaggttataccttcaaaaaatgactaagctgga

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