LOCUS       NM_001039505            2635 bp    mRNA    linear   ROD 28-MAR-2024
DEFINITION  Rattus norvegicus iroquois homeobox 2 (Irx2), mRNA.
ACCESSION   NM_001039505 XM_225077
VERSION     NM_001039505.3
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 2635)
  AUTHORS   Werner,S., Stamm,H., Pandjaitan,M., Kemming,D., Brors,B., Pantel,K.
            and Wikman,H.
  TITLE     Iroquois homeobox 2 suppresses cellular motility and chemokine
            expression in breast cancer cells
  JOURNAL   BMC Cancer 15, 896 (2015)
   PUBMED   26560478
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2635)
  AUTHORS   Jolma,A., Yan,J., Whitington,T., Toivonen,J., Nitta,K.R.,
            Rastas,P., Morgunova,E., Enge,M., Taipale,M., Wei,G., Palin,K.,
            Vaquerizas,J.M., Vincentelli,R., Luscombe,N.M., Hughes,T.R.,
            Lemaire,P., Ukkonen,E., Kivioja,T. and Taipale,J.
  TITLE     DNA-binding specificities of human transcription factors
  JOURNAL   Cell 152 (1-2), 327-339 (2013)
   PUBMED   23332764
REFERENCE   3  (bases 1 to 2635)
  AUTHORS   Reggiani,L., Raciti,D., Airik,R., Kispert,A. and Brandli,A.W.
  TITLE     The prepattern transcription factor Irx3 directs nephron segment
            identity
  JOURNAL   Genes Dev 21 (18), 2358-2370 (2007)
   PUBMED   17875669
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000001.1.
            
            On Feb 10, 2021 this sequence version replaced NM_001039505.2.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. There are no full-length rat transcripts
            supporting this RefSeq. The genomic coordinates and exon
            combination used for the transcript record were based on alignment
            to full-length mouse mRNA BC085291.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643294.413.1, SRR26643295.434.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN16676785, SAMN16676787
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-519               JAXUCZ010000001.1  32494412-32494930   c
            520-925             JAXUCZ010000001.1  32492758-32493163   c
            926-1639            JAXUCZ010000001.1  32491762-32492475   c
            1640-1715           JAXUCZ010000001.1  32491077-32491152   c
            1716-2635           JAXUCZ010000001.1  32489512-32490431   c
FEATURES             Location/Qualifiers
     source          1..2635
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /map="1p11"
     gene            1..2635
                     /gene="Irx2"
                     /note="iroquois homeobox 2"
                     /db_xref="GeneID:306657"
                     /db_xref="RGD:1309834"
     exon            1..519
                     /gene="Irx2"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    142..144
                     /gene="Irx2"
                     /note="upstream in-frame stop codon"
     CDS             268..1692
                     /gene="Irx2"
                     /note="Iroquois related homeobox 2; Iroquois related
                     homeobox 5"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-2"
                     /protein_id="NP_001034594.1"
                     /db_xref="GeneID:306657"
                     /db_xref="RGD:1309834"
                     /translation="

MSYPQGYLYQAPGSLALYSCPAYGASALAAPRSEELARSASGSAFSPYPGSAAFTAQAATGFGSPLQYSADAAAAAAAGFPSYMGSPYDTHTTGMTGAISYHPYGSAAYPYQLNDPAYRKNATRDATATLKAWLNEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWAPRNKSEDEDEDEGDASRSKEENPDKAQDGTETSAEDEGISLHVDSLTDHSCSAESDGEKLPCRAGDPLCESGSECKDKFEDLEDEEDDEDECERDLVPPKPVTSSPLTGVEAPLLSPAPEAAPRGGSGGKTPLGSRTSPGAPPPASKPKLWSLAEIATSDLKQPSLGPGCGPPGLPAAAAPASSGAPPGGSPYSASPLLGRHLYYTSPFYGNYTNYGNLNAALQGQGLLRYNTAASSPGETLHAIPKAASDAGKAGSHSLESHYRPPGGGYEPKKDASEGCAVVGAGVQPYL"

     misc_feature    <610..918
                     /gene="Irx2"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    order(622..627,631..633,691..693,709..711,748..750,
                     754..759,766..771,775..783,787..792)
                     /gene="Irx2"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(628..630,757..759,766..771,778..780)
                     /gene="Irx2"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    667..783
                     /gene="Irx2"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     misc_feature    1240..1293
                     /gene="Irx2"
                     /note="Motif in Iroquois-class homeodomain proteins
                     (only). Unknown function; Region: IRO; smart00548"
                     /db_xref="CDD:214716"
     exon            520..925
                     /gene="Irx2"
                     /inference="alignment:Splign:2.1.0"
     exon            926..1639
                     /gene="Irx2"
                     /inference="alignment:Splign:2.1.0"
     exon            1640..1715
                     /gene="Irx2"
                     /inference="alignment:Splign:2.1.0"
     exon            1716..2635
                     /gene="Irx2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gagcgctccttcctcaactcctcactcctgactgcagactcccccaaatcccgaccgccggcctggcgcgcggctgcgcccaccggctccgctctgctgccgccgccgccgccccaccgatccgccagccccgcgcccagctagcgccctccagtccagcctgccccgacccacggccccggtgcgccccggccgggcgtggatggagggcgccgcgcgcgctgcccgctgctccgtgtgacgcgggccctgcgcccggcgcccaccatgtcctacccgcagggctacctgtaccaagcgcccggctcgctggcgctctactcgtgccccgcgtacggcgcgtccgcgctggcggcgccgcgcagcgaagagctggcgcgctcggcttcgggctccgcgttcagtccgtaccccggctcagcggccttcacagcgcaggcggccaccggcttcggcagcccgctgcagtactcggccgacgctgccgccgccgccgctgccggcttcccgtcctacatgggctcgccatacgacacgcacaccaccggaatgactggcgccatcagttatcacccatatggcagcgcggcctacccataccagcttaacgaccccgcgtaccgcaagaacgccacgcgggacgccactgccacactgaaagcctggctcaacgaacaccgcaagaacccgtaccccaccaagggagagaagatcatgctggccatcatcaccaagatgaccctcacgcaggtttccacctggttcgccaacgcgcgccggcgcctcaagaaggagaacaaaatgacctgggccccgaggaacaaaagcgaagacgaggacgaggacgagggagatgcttccagaagcaaggaggagaatccagacaaggcacaggacggcacagagacctccgcggaggacgaagggatcagtctacacgtcgactcgctcaccgaccactcgtgctcggcggagtcagatggggagaaattgccctgccgcgccggggatcccttgtgcgaatcgggctctgagtgtaaggacaagtttgaggacctggaggatgaggaggacgatgaagacgagtgcgagcgggatctggtgccgcccaagcccgtaacctcctcgcccctcaccggcgtggaggcacccctgctgagcccggcgcccgaagccgcgccgcgcggtggtagcggtggcaagacgcccctaggcagccggacgtcgcctggagcgccgccgcctgccagcaagcccaagctgtggtcgctggccgagatagccacgtcggacctcaagcaaccaagcttgggcccagggtgcgggcctccgggtctgcccgctgccgccgcgcctgcctcgtctggggcccctccgggaggctcgccctactctgcttcgccgctgctgggccgccacctctattacacgtcccctttctatggcaactacacaaactacgggaacttaaacgcagcgctccaaggccagggccttctgcggtacaataccgcggcctcctcaccaggcgagacactgcacgccatcccaaaggcggccagcgacgcgggcaaggcgggctcgcattcgctggagtcccactacaggcctccgggcggcggctacgagcccaagaaagatgccagtgagggctgtgcagttgttggtgcaggcgtccagccctacctataggagggccaagctcagcagtgcaagtaggtgtcacaattgctttggaaaaaaaaagtcaggaggccattctcccttcccaagctcataaatacacagatacaaaccccagatgtggaaatgcggaccacattttgtgccactgtatagaggatgcagactgcactgccaacccacagactctaaggactggacacacgttgtttgggcatatgagaactcgttggcatagtatagcttccctatgtttgtgtgacttttggaaacaatctgttttttctcaggatatcttcacttcattgccacggtatatattctataggtgtgatagaacttgctgtaaaatttatttgtaaaaaaaaatgtacacggtagaactaatgtgattgaagaacttgggtccttcagaagtggaaacaaatttgatatttatttttataatgacataaagcttctagtaatttatgcaagttgtattgcaatgaaatctaaaacttttgtaaataaattctgcctggtttttatttgaacattgctggttatacaatctctgttggttgtttaacatgaattctctactaatttatatctaaaactgtaaataaaaacagatgagcctacaagaaaatggtgttcggggctcatttttcctggagagccattctggtaggagctacagtgttgaccctggttcctgccccaaaggtgatcctagctcaccttttaagtgaagagcccagtgaaataaacttccttctcaagcttatttgaaaattgcagacctgagagagattaatgtgcaacagggaaaatacctatgctttagtttatttacaggcaaatgtgtctcgagaaagtaattcaggtttttgttctctgaatatgcaaatcccttcttagtgtaaatttctaaaacatgaaaaaaaataaaaggatatgtcacctc

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