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2024-03-29 11:27:52, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_015772800            1411 bp    mRNA    linear   PLN 07-AUG-2018
DEFINITION  PREDICTED: Oryza sativa Japonica Group homeobox-leucine zipper
            protein HOX13-like (LOC4331890), transcript variant X3, mRNA.
ACCESSION   XM_015772800
VERSION     XM_015772800.2
DBLINK      BioProject: PRJNA122
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_029258.1) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Aug 7, 2018 this sequence version replaced XM_015772800.1.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Oryza sativa Japonica Group
                                           Annotation Release 102
            Annotation Version          :: 102
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.1
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..1411
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /cultivar="Nipponbare"
                     /db_xref="taxon:39947"
                     /chromosome="3"
     gene            1..1411
                     /gene="LOC4331890"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 2 mRNAs, 43 ESTs, 11 Proteins, and
                     100% coverage of the annotated genomic feature by RNAseq
                     alignments, including 51 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:4331890"
     CDS             217..1062
                     /gene="LOC4331890"
                     /codon_start=1
                     /product="homeobox-leucine zipper protein HOX13 isoform
                     X2"
                     /protein_id="XP_015628286.1"
                     /db_xref="GeneID:4331890"
                     /translation="
MEQKDEAEMEEVDEEEEEEVDEDMAGGHAAQSPSPSCGLGEKKRRLALEQVRALERSFDTDNKLDPDRKARIARDLGLQPRQVAVWFQNRRARWKTKQLERDFAALRARHDALRADCDALRRDKDALAAEIRELREKLPTKPADTAASVKVEAGNDAAAGAAAATVCKDGSSDDSDSSVVFNDEASPYSGAAFIGFGPSFLVDDASAATVGCSSSLPALESKWHGPYSDDSCKGGVYGFTEEWLAACSGEMAGNDAAGFFSDEHASNLNFGWCASGNEGWE"
     misc_feature    order(340..348,352..354,403..405,421..423,460..462,
                     466..471,478..483,487..495,499..504)
                     /gene="LOC4331890"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(340..342,349..351,469..471,478..483,490..492)
                     /gene="LOC4331890"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    361..501
                     /gene="LOC4331890"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    505..630
                     /gene="LOC4331890"
                     /note="Homeobox associated leucine zipper; Region: HALZ;
                     pfam02183"
                     /db_xref="CDD:426641"
ORIGIN      
ttcttgcatcagctgtttgccccgtccactgacctctctctctgctctccgcctctcacctccgtcctccaaaggacgaatcggcactctgcccagttcatctccacgatcactgctcgattctcgaagcaggggaggccattgccaccgaccaacaaaagttgaaggggagaggacctggcgttctctgaggagggcagcttgcccgcggtgaccatggagcagaaagatgaagccgagatggaggaggtggacgaggaggaggaggaggaggtcgacgaagacatggccggcgggcacgcggcgcagtcgccgtcgccgtcgtgcgggctgggcgagaagaagcggcggctggcgctggagcaggtgcgcgctctggagcggagcttcgacacggacaacaagctggacccggaccgcaaggcccgcatcgcgcgcgacctcggcctgcagccgcgccaggtcgccgtctggttccagaaccgccgcgcccggtggaagacgaagcagctcgagcgcgacttcgccgccctccgcgcccgccacgacgccctccgcgccgactgcgacgccctgcgccgcgacaaggacgccctcgccgccgagattcgggagctgagggagaagctgcccaccaagccggcggacacggcggcatcggtgaaggtagaagccggcaatgacgcggcggccggcgccgcggccgccacggtgtgcaaggacggctcgtcggacgacagcgactccagcgtggtgttcaacgacgaggcgtcgccgtactccggcgcggccttcattggattcggcccgtcgttcttggtcgacgacgcgtcggcggcaaccgtgggctgctcgtcgtcgctccccgcgctcgagtccaaatggcacggtccgtactccgacgactcgtgcaaaggcggcgtctatggcttcacggaggaatggctcgctgcctgctccggcgagatggccggcaacgacgccgccggcttcttctccgacgagcacgcctccaacctcaacttcggttggtgcgcgagtggtaacgagggttgggaatgagattttgatctccacggttagtgtaaaaaatggcagggttagtagcactgtgcataaccgcattggcgcattgcatgcttggatggagcacgtacttttagtttttttactgtactcatttactaccgcctttggctacctggcgtgcttactgctagtactgtagcaaagtagcaagaagtggaacgagcctagaggacgaaattgatatagggtaattaacgaaggatcaaggatgtaaattttaagccgccaaggggtcgaagaaggatagcacaggacagcaaagcatagctgtctgcgttttactacctgtggtatatatatcatactagtatattataaagca
//

by @meso_cacase at DBCLS
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]