LOCUS       NM_001402028            1588 bp    mRNA    linear   PLN 01-JAN-2023
DEFINITION  Oryza sativa Japonica Group homeobox protein knotted-1-like 3
            (LOC4331449), mRNA.
ACCESSION   NM_001402028
VERSION     NM_001402028.1
KEYWORDS    RefSeq.
SOURCE      Oryza sativa Japonica Group (Japanese rice)
  ORGANISM  Oryza sativa Japonica Group
            Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
            Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP
            clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
REFERENCE   1  (bases 1 to 1588)
  AUTHORS   Kikuchi S, Satoh K, Nagata T, Kawagashira N, Doi K, Kishimoto N,
            Yazaki J, Ishikawa M, Yamada H, Ooka H, Hotta I, Kojima K, Namiki
            T, Ohneda E, Yahagi W, Suzuki K, Li CJ, Ohtsuki K, Shishiki T,
            Otomo Y, Murakami K, Iida Y, Sugano S, Fujimura T, Suzuki Y,
            Tsunoda Y, Kurosaki T, Kodama T, Masuda H, Kobayashi M, Xie Q, Lu
            M, Narikawa R, Sugiyama A, Mizuno K, Yokomizo S, Niikura J, Ikeda
            R, Ishibiki J, Kawamata M, Yoshimura A, Miura J, Kusumegi T, Oka M,
            Ryu R, Ueda M, Matsubara K, Kawai J, Carninci P, Adachi J, Aizawa
            K, Arakawa T, Fukuda S, Hara A, Hashizume W, Hayatsu N, Imotani K,
            Ishii Y, Itoh M, Kagawa I, Kondo S, Konno H, Miyazaki A, Osato N,
            Ota Y, Saito R, Sasaki D, Sato K, Shibata K, Shinagawa A, Shiraki
            T, Yoshino M, Hayashizaki Y and Yasunishi A.
  CONSRTM   Rice Full-Length cDNA Consortium; National Institute of
            Agrobiological Sciences Rice Full-Length cDNA Project Team;
            Foundation of Advancement of International Science Genome
            Sequencing & Analysis Group; RIKEN
  TITLE     Collection, mapping, and annotation of over 28,000 cDNA clones from
            japonica rice
  JOURNAL   Science 301 (5631), 376-379 (2003)
   PUBMED   12869764
  REMARK    Erratum:[Science. 2003 Sep;301(5641):1849]
REFERENCE   2  (bases 1 to 1588)
  AUTHORS   Ito Y, Hirochika H and Kurata N.
  TITLE     Organ-specific alternative transcripts of KNOX family class 2
            homeobox genes of rice
  JOURNAL   Gene 288 (1-2), 41-47 (2002)
   PUBMED   12034492
REFERENCE   3  (bases 1 to 1588)
  AUTHORS   Ito Y, Eiguchi M and Kurata N.
  TITLE     Expression of novel homeobox genes in early embryogenesis in rice
  JOURNAL   Biochim Biophys Acta 1444 (3), 445-450 (1999)
   PUBMED   10095070
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AB061819.1 and BT131771.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB061819.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00008650, SAMD00020310
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1468              AB061819.1         1-1468
            1469-1588           BT131771.1         226-345
FEATURES             Location/Qualifiers
     source          1..1588
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /db_xref="taxon:39947"
                     /chromosome="3"
                     /map="3"
     gene            1..1588
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="homeobox protein knotted-1-like 3"
                     /db_xref="GeneID:4331449"
     exon            1..554
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    24..26
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="upstream in-frame stop codon"
     CDS             195..1139
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="KNOX family class 2 homeodomain protein;
                     LOC_Os03g03164; Homeobox protein HOS66"
                     /codon_start=1
                     /product="homeobox protein knotted-1-like 3"
                     /protein_id="NP_001388957.1"
                     /db_xref="GeneID:4331449"
                     /translation="

MQGGDHGGMEMGVGSFTGGGGGGECSSSSATAAAAAAAAAAAAAAEAEERQLLKGEIAVHPLCEQLVAAHVGCLRVATPIDHLPLIDAQLAQSSGLLHSYAAHHRPFLSPHDKQELDSFLAQYMMLLCSFREQLQQHVRVHAVEAVMACREIEQSLQDLTGATLEEGTGATMSEDEDETAPMLEGPMDMGSDGHDLMGFGPLMPTDSERSLMERVRQELKIELKQGFKSRIEDVREEILRKRRAGKLPGDTTTILKQWWQQHSKWPYPTEDDKAKLVEETGLQLKQINNWFINQRKRNWHNNSQTSTLKSKRKR"

     misc_feature    348..467
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="KNOX1 domain; Region: KNOX1; pfam03790"
                     /db_xref="CDD:427505"
     misc_feature    519..674
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="KNOX2 domain; Region: KNOX2; pfam03791"
                     /db_xref="CDD:427506"
     misc_feature    order(915..929,933..935,993..995,1011..1013,1050..1052,
                     1056..1061,1068..1073,1077..1085,1089..1094)
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(921..923,930..932,1059..1061,1068..1073,1080..1082)
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    969..1085
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            555..675
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /inference="alignment:Splign:2.1.0"
     exon            676..869
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /inference="alignment:Splign:2.1.0"
     exon            870..1001
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /inference="alignment:Splign:2.1.0"
     exon            1002..1578
                     /gene="LOC4331449"
                     /gene_synonym="HOS66; OJ1126B12.15/OJ1126B12.16;
                     OsJ_008895; OsJ_008896; OsJ_09228"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gccttctcgctggccattagagctagctagcgagagctctagctacagctatacatacgtgtacccaacggccacggtcacccgcgcgagcgagcacgcgcaccaaccgatcgagcccaacaagctcgctcgctcttggtgcgcgcgcgcgcggcgagttcgatcgatcggtgtatacgcgtatcgtgttgtgtatgcaaggcggtgatcacggaggcatggagatgggcgtggggtcgttcaccggcggcggaggaggcggggagtgctcgtcgtcgtcggcgacggcggcggctgctgcggcggctgcggcggcggcggcggcggcggaggcggaggagcggcagctgctcaagggggagatcgcggtgcacccgctgtgcgagcagctggtggcggcgcacgtgggctgcctgcgcgtggcgacgcccatcgaccacctcccgctgatcgacgcgcagctcgcgcagtccagcggcctcctccactcctacgccgcgcaccaccgccccttcctctccccccacgacaagcaggagctcgactccttcctcgcgcagtacatgatgctgctgtgctcgttcagggagcagctgcagcagcacgtccgggtgcacgccgtggaggccgtcatggcgtgccgcgagatcgagcaatccttgcaggacctaaccggtgcaactttggaggaagggacaggggcgaccatgtcggaggacgaggatgagacggcgccgatgctggagggcccgatggatatgggctcggacgggcacgacctcatgggcttcggcccgctcatgcccaccgactccgagcgatccctcatggagcgggtcaggcaagagctcaagattgagctcaagcagggcttcaagtcaaggattgaggatgtgagagaagaaatattgaggaagaggagggcaggaaagttgcctggggacaccaccaccatactcaagcaatggtggcagcaacactccaagtggccataccccacggaggatgataaggcaaagcttgttgaagagactggcctgcagctcaagcaaatcaacaactggttcatcaatcagagaaagcgtaactggcacaacaactcacagacatcaacccttaaatcaaagcgtaaaaggtaaacaaaccgttatccaagtattttatccacagtaatacaatgttgatgtttcagtaattaacaactgaattataacacaaacttcttttttctatatgtaatacaggtaaagggcagaaaaaaatgtatacctgacgtactcgctaatcaaatcaaaagaagacatggtgactcataagtaataagatcatcttaaattgtatatctagttattaattagtcagaggtgacaaattcatgacatacatactagtctgaccactggcatatgcgttgtaatttttgagcagatatgctcaagcaaattcttcttgttggtatagtttttaattttgttgtcgtgggtgtacctgcatgcatacataaccccaagactaattcatttgctgtgcatatacattgaccattctataaccttctgctagtcaaataatcaaaaaaaaaaaaaaa

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