LOCUS       NM_001402068            1728 bp    mRNA    linear   PLN 05-MAR-2022
DEFINITION  Oryza sativa Japonica Group homeobox-leucine zipper protein
            HOX13-like (LOC4331890), transcript variant 2, mRNA.
ACCESSION   NM_001402068 XM_015772799
VERSION     NM_001402068.1
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 1728)
  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]
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CI770387.1, AK101522.1, AP014959.1 and CI222005.1.
            
            On Mar 5, 2022 this sequence version replaced XM_015772799.2.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            CDS exon combination :: AK060119.1, AY554032.1 [ECO:0000331]
            RNAseq introns       :: single sample supports all introns
                                    SAMD00020310, SAMD00020311 [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-271               CI770387.1         2-272
            272-332             AK101522.1         269-329
            333-450             AP014959.1         4653262-4653379
            451-1154            AK101522.1         330-1033
            1155-1728           CI222005.1         1-574
FEATURES             Location/Qualifiers
     source          1..1728
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /db_xref="taxon:39947"
                     /chromosome="3"
                     /map="3"
     gene            1..1728
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="homeobox-leucine zipper protein HOX13-like"
                     /db_xref="GeneID:4331890"
     exon            1..450
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    411..413
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="upstream in-frame stop codon"
     exon            451..887
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /inference="alignment:Splign:2.1.0"
     CDS             498..1343
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="isoform 2 is encoded by transcript variant 2;
                     HD-ZIP protein HOX13; Homeodomain transcription factor
                     HOX13; LOC_Os03g08960; homeobox-leucine zipper protein
                     HOX13"
                     /codon_start=1
                     /product="homeobox-leucine zipper protein HOX13 isoform 2"
                     /protein_id="NP_001388997.1"
                     /db_xref="GeneID:4331890"
                     /translation="

MEQKDEAEMEEVDEEEEEEVDEDMAGGHAAQSPSPSCGLGEKKRRLALEQVRALERSFDTDNKLDPDRKARIARDLGLQPRQVAVWFQNRRARWKTKQLERDFAALRARHDALRADCDALRRDKDALAAEIRELREKLPTKPADTAASVKVEAGNDAAAGAAAATVCKDGSSDDSDSSVVFNDEASPYSGAAFIGFGPSFLVDDASAATVGCSSSLPALESKWHGPYSDDSCKGGVYGFTEEWLAACSGEMAGNDAAGFFSDEHASNLNFGWCASGNEGWE"

     misc_feature    order(621..629,633..635,684..686,702..704,741..743,
                     747..752,759..764,768..776,780..785)
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(621..623,630..632,750..752,759..764,771..773)
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    642..782
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    786..911
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /note="Homeobox associated leucine zipper; Region: HALZ;
                     pfam02183"
                     /db_xref="CDD:426641"
     exon            888..1728
                     /gene="LOC4331890"
                     /gene_synonym="Hox13; OJ1217B09.11; OsHox13"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

agctgtttgccccgtccactgacctctctctctgctctccgcctctcacctccgtcctccaaaggacgaatcggcactctgcccagttcatctccacgatcactgctcgattctcgaagcaggggaggccattgccaccgaccaacaaaagttgaaggggtacacacatctgcatgcaatttctgtcctctggttgctagctgccgcttctttcaagtttcaacactccttgcaaccctccactcgtaggatcatctccatttccaatcctccttcagttttgtaaataatgaagaggcccaccagcagcagccgaaaatccaaaaaacaaggtgtgtttgctgcgagatctttttcgtttgtgtagactacttgtggagtgcgtcatggctgcaaatctgtttgaagcttaaatacaagtgcaaactgtacaatccatctgcatttgcggagaggacctggcgttctctgaggagggcagcttgcccgcggtgaccatggagcagaaagatgaagccgagatggaggaggtggacgaggaggaggaggaggaggtcgacgaagacatggccggcgggcacgcggcgcagtcgccgtcgccgtcgtgcgggctgggcgagaagaagcggcggctggcgctggagcaggtgcgcgctctggagcggagcttcgacacggacaacaagctggacccggaccgcaaggcccgcatcgcgcgcgacctcggcctgcagccgcgccaggtcgccgtctggttccagaaccgccgcgcccggtggaagacgaagcagctcgagcgcgacttcgccgccctccgcgcccgccacgacgccctccgcgccgactgcgacgccctgcgccgcgacaaggacgccctcgccgccgagattcgggagctgagggagaagctgcccaccaagccggcggacacggcggcatcggtgaaggtagaagccggcaatgacgcggcggccggcgccgcggccgccacggtgtgcaaggacggctcgtcggacgacagcgactccagcgtggtgttcaacgacgaggcgtcgccgtactccggcgcggccttcattggattcggcccgtcgttcttggtcgacgacgcgtcggcggcaaccgtgggctgctcgtcgtcgctccccgcgctcgagtccaaatggcacggtccgtactccgacgactcgtgcaaaggcggcgtctatggcttcacggaggaatggctcgctgcctgctccggcgagatggccggcaacgacgccgccggcttcttctccgacgagcacgcctccaacctcaacttcggttggtgcgcgagtggtaacgagggttgggaatgagattttgatctccacggttagtgtaaaaaatggcagggttagtagcactgtgcataaccgcattggcgcattgcatgcttggatggagcacgtacttttagtttttttactgtactcatttactaccgcctttggctacctggcgtgcttactgctagtactgtagcaaagtagcaagaagtggaacgagcctagaggacgaaattgatatagggtaattaacgaaggatcaaggatgtaaattttaagccgccaaggggtcgaagaaggatagcacaggacagcaaagcatagctgtctgcgttttactacctgtggtatatatatcatactagtatattataaagcattacataatagaaaaaaaaagacataatgccacatg

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