LOCUS       XM_015769369            2499 bp    mRNA    linear   PLN 10-JUL-2024
DEFINITION  PREDICTED: Oryza sativa Japonica Group homeobox protein ATH1
            (LOC4328784), mRNA.
ACCESSION   XM_015769369
VERSION     XM_015769369.3
DBLINK      BioProject: PRJNA1123306
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.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_089036) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Jul 10, 2024 this sequence version replaced XM_015769369.2.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_034140825.1-RS_2024_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.3
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/21/2024
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2499
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /db_xref="taxon:39947"
                     /chromosome="2"
     gene            1..2499
                     /gene="LOC4328784"
                     /note="homeobox protein ATH1; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 2
                     mRNAs, 2 ESTs, 54 long SRA reads, 18 Proteins, and 99%
                     coverage of the annotated genomic feature by RNAseq
                     alignments, including 70 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:4328784"
     CDS             461..2080
                     /gene="LOC4328784"
                     /codon_start=1
                     /product="homeobox protein ATH1"
                     /protein_id="XP_015624855.1"
                     /db_xref="GeneID:4328784"
                     /translation="

MSGNPSFSQLGAVDAAMNGGYFMAASGNGADVPLFHPAMAPPHDHGGSFGYGDAAAAAMDVGAHFAAANNLVLASLATQLFGAAPAAAAHGHGDYLGATTPPEEEMGGGYDVAVGDSSGGAVSLACLGHGQPGDMAAGWCSTSARKPSCNWSSSNAGVHGGSYYLAGVPEAAGFVSAAAAASELSLSLCSKSSSDSMLNAGGDQCSSAASRSGLTQMSRVVVVEPEPPLVPYYPAANFAVVVARSRYAAVAQQVLNDAVGCVLGGVADAAADSASGVDSGSSRPSSCSVAGGAPSSAVSSNNQLIASSGEHTHGGGDASAQRLRSELLTMLQLMDQKYNQCLDEIQSTTARFNTLTHATARAAGMSSSSICAPFAHRAVSAMYHGLRRRIAGEIMSAAAAAGRPCRGGESSSAVTGGERERSWESAFIQKHWAVQQLRRGEQQCWRPQRGLPEKSVAVLKAWMFENFLRPYPKDSEKEMLAARSGLSRNQVSNWFINARVRLWKPMIEEMCEELKRSSGGGAGNQALAMEHMNSQDVVS"

     misc_feature    1181..1633
                     /gene="LOC4328784"
                     /note="Associated with HOX; Region: POX; pfam07526"
                     /db_xref="CDD:429514"
     misc_feature    order(1793..1807,1811..1813,1871..1873,1889..1891,
                     1928..1930,1934..1939,1946..1951,1955..1963,1967..1972)
                     /gene="LOC4328784"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1799..1801,1808..1810,1937..1939,1946..1951,
                     1958..1960)
                     /gene="LOC4328784"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1847..1963
                     /gene="LOC4328784"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     polyA_site      2499
                     /gene="LOC4328784"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

gagctactactagttgtgtatgggcaccaacaccttgtcattggcactttgcctcctgagtagggcccattggttctttgatagcctctcctccaaggccaaaaaattttctgacccagtgtcaaggtcagggagagctgctcccttgctggccttgagatgtttgcattggttttttccctttccctttctctttggtggtcattaggcctacctgatactacttgtagtgagtgagtgataagttgataacacttctccctgccccaattgtttccttgttcctagtagaagtagaagctggaagctggtctctttgggttttggaaggcttcatctttccattttaggtcctgcaagtgtgctcaacaactcaagcttcactgtcttcttggtttctacctctggttttgattattatcactagtttctgcaattcttggagatttccgaggcggccatgagcggcaatccatcgttctcgcagctcggtgcggtggacgccgccatgaacggcggctacttcatggcggcgagcggcaatggcgccgacgtgccgctgttccatccggccatggcgccgccgcatgatcacggcgggagcttcggctacggcgacgcggcggcggcggcgatggacgtcggcgcgcacttcgcggcggcgaacaacctcgtgctcgcgtccctggcgacccagctgttcggcgccgcgccggcggcggcggcgcacgggcatggcgactacctcggcgcgacgacgccgccggaggaggagatggggggcgggtacgacgtcgccgtcggcgacagctccggcggcgcggtgagcctcgcgtgcctcggccacggccagccgggcgacatggcggcggggtggtgctcgacgtcggcgaggaagccgagctgcaactggagcagcagcaacgccggtgtgcacggtggttcgtattacctcgccggggtgccggaggctgccggcttcgtgtccgcggcggcggcggcgagcgagctgtcgctgagcctgtgctccaagtcgtcctcggacagcatgctcaacgccggcggcgaccagtgctcgtcggcggcgagccgttccgggctgacgcagatgagcagggtggtggtggtggagcccgagccgccgctcgtaccgtactacccggcggcgaacttcgccgtggtggtggcgcggtcccgatacgccgcggtggcgcagcaggtgctcaacgacgccgtcggctgcgtgctgggcggcgtcgcggacgccgccgccgactcggccagcggcgtcgacagcggcagctcgaggccgtcgagctgctcggtggccggcggcgcgccgtcgtccgccgtgagctccaacaaccagctcatcgcctcctccggcgagcacacgcacggcggcggcgacgcttcggctcagcggctcaggagcgagctcctcaccatgctccagctgatggatcagaagtacaaccaatgcctcgacgagatccagagcacgacggcgaggttcaacaccctgacgcacgccacggcgcgcgccgccgggatgagcagcagcagcatctgcgcgccgttcgcgcaccgcgccgtgtcggcaatgtaccacggcctgaggcgccgcattgccggcgagatcatgtccgccgccgccgcggccggcaggccttgccgcggcggcgagtcgtcgtcggcggtgaccggcggcgagagggagcggagctgggagtcggcgttcatccagaagcactgggcggtgcagcagctgcggcgcggcgagcagcagtgctggcggccgcagcgcggcctcccggagaagtccgtcgccgtcctcaaggcctggatgttcgagaacttcctccgcccgtatccgaaagacagcgagaaggagatgctcgcagcaaggagcggcctcagcaggaaccaggtgtcgaattggttcataaacgctcgagttcggctatggaagccaatgatcgaggagatgtgcgaggagctgaagaggagctcgggtggtggtgctggaaatcaagctctagcaatggagcatatgaacagccaagatgtggtcagttaaccagttagagctttggcttggtttgatggcgatgttagctgcggattaagatcaatcaatgccattgatctatttatcgatcaccaattgtaactcagtttaattcgatggtttcagtatatataaaagctgccggtgcagtgatcgcatttcgcggtagatcatgagcacctcattgggagatcgatgcgaattgctgagttttcagttgagtaggctgcagtaaaaaaatcagttaaaaaatttgggattgattgttgttagtactacctcagttccaaattataaggatatttaggctatttagtaaatagttctgaggttggcaatttttttttttgaattgcgtacgtcttaggggctcaagatccgctcatattttcacattgttgatgtcctaagatccgctcatattttca

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