LOCUS       NM_001402899            1537 bp    mRNA    linear   PLN 01-JAN-2023
DEFINITION  Oryza sativa Japonica Group homeobox protein knotted-1-like 11
            (LOC4341661), transcript variant 2, mRNA.
ACCESSION   NM_001402899 XM_015788904
VERSION     NM_001402899.1
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 1537)
  AUTHORS   Jantasuriyarat C, Gowda M, Haller K, Hatfield J, Lu G, Stahlberg E,
            Zhou B, Li H, Kim H, Yu Y, Dean RA, Wing RA, Soderlund C and Wang
            GL.
  TITLE     Large-scale identification of expressed sequence tags involved in
            rice and rice blast fungus interaction
  JOURNAL   Plant Physiol 138 (1), 105-115 (2005)
   PUBMED   15888683
REFERENCE   2  (bases 1 to 1537)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CI596601.1, AB061818.1, CB676086.1 and CI417929.1.
            
            On Mar 23, 2022 this sequence version replaced XM_015788904.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK289177.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN05863939, SAMN05863941
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-175               CI596601.1         2-176
            176-933             AB061818.1         181-938
            934-1393            CB676086.1         100-559             c
            1394-1537           CI417929.1         286-429
FEATURES             Location/Qualifiers
     source          1..1537
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /db_xref="taxon:39947"
                     /chromosome="6"
                     /map="6"
     gene            1..1537
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="homeobox protein knotted-1-like 11"
                     /db_xref="GeneID:4341661"
     exon            1..400
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
     CDS             50..985
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="isoform 2 is encoded by transcript variant 2; KNOX
                     family class 2 homeodomain protein; OSJNBa0062J02.2;
                     Homeobox protein HOS59; LOC_Os06g43860"
                     /codon_start=1
                     /product="homeobox protein knotted-1-like 11 isoform 2"
                     /protein_id="NP_001389828.1"
                     /db_xref="GeneID:4341661"
                     /translation="

MAFHYQDHALAMDAAAAAAETGGHHHPGFVGAGGVVGGGGGGGWEREKAAIAAHPLYERLLEAHVACLRVATPVDQLPRIDAQIAARPPPLAAATAAAAAAAAGGAPSGGEELDLFMTHYVLLLCSFKEQLQQHVRVHAMEAVMACWELEQTLQSLTGASPREGSGATMSDDEDNQVDSESNMFDGNDGSDGMGFGPLMLTEGERSLVERVRQELKHELKQGYREKLVDIREEILRKRRAGKLPGDTASTLKAWWQAHSKWPYPTEEDKARLVQETGLQLKQINNWFINQRKRNWHSNPASSSSDKSKRKR"

     misc_feature    191..298
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="KNOX1 domain; Region: KNOX1; pfam03790"
                     /db_xref="CDD:427505"
     misc_feature    383..520
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="KNOX2 domain; Region: KNOX2; pfam03791"
                     /db_xref="CDD:427506"
     misc_feature    521..589
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="propagated from UniProtKB/Swiss-Prot (Q94LW4.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    689..754
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="ELK domain; Region: ELK; pfam03789"
                     /db_xref="CDD:427504"
     misc_feature    order(758..772,776..778,836..838,854..856,893..895,
                     899..904,911..916,920..928,932..937)
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(764..766,773..775,902..904,911..916,923..925)
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    812..928
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /note="Homeobox KN domain; Region: Homeobox_KN; pfam05920"
                     /db_xref="CDD:428673"
     exon            401..521
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
     exon            522..712
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
     exon            713..844
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
     exon            845..981
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1514
                     /gene="LOC4341661"
                     /gene_synonym="HOS59; OJ1226_A12.18"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gtcttcctcctccacctcgcgcgctgcagcagcagcagcggtgcgcgtgatggcgttccactaccaggaccacgcgctggcgatggacgccgcggctgcggcggcggagacgggcggccaccaccaccctgggttcgtcggggcgggaggagttgtggggggaggaggaggaggagggtgggagcgggagaaggccgccatcgcggcgcacccgctgtacgagcggctgctggaggcgcacgtcgcgtgcctccgcgtcgccacccccgtcgaccagctgccccgcatcgacgcgcagattgcggcgcgccccccgccgctggccgccgccacggccgcagcggcggccgcggcggccggaggggcgccgtccggcggcgaggagctcgacctcttcatgacccattatgtattgctcctttgttcgttcaaggaacaactacagcaacatgtgcgtgttcatgcaatggaagcagtaatggcttgctgggaacttgaacaaactttacagagccttacaggggcatctcctcgtgaaggttctggagcaactatgtctgatgacgaagacaatcaggttgatagtgagagcaacatgtttgatggaaatgatggatcagatggtatgggctttggccccttaatgctgacggagggcgagagatcattagttgagcgtgtacggcaagagctgaaacatgagcttaaacaggggtacagagaaaagcttgtggacattagggaagagatactccgaaagcgaagagctggaaaactcccaggagatacagcgtctactttgaaagcatggtggcaggctcactctaaatggccatacccaactgaggaggacaaggctcgcttggtgcaggaaacagggttgcaactaaaacagatcaataattggtttatcaaccaacgtaaacggaactggcacagcaatcctgcttcatcctcatcagacaaaagcaagagaaaaaggtgatggcaaggccgagcaatcttggtagaacgtggttggagaagaagtatatatatgtaaataatgcatccattgtgaagaatgccagtatatttattgctcccaagatggcgattcggacagaagcttcctggggctaatttatacgaaagaaattatgtcatgttataattttagtcatgtgaagctatagtgcgtatatatagtgacttaccagagagtagtttttatgtttgctgttggctagtgtgcatttgtagttgggacgtgctggctgtctctctacagctcggtacaaccatgtatttataacgtgttgtgaagcatatgttgtaaaatcgtggaatgggagtgttctgcgatccccatatgttgttgtaatgttgtatattgatgaccatgctgcaacggcagcatgtttgtaactcgttatatcctcaggctcttgtgttgttacaaattacagaactatattgtctttaacgagcatctcctgttgaattaataatagccagacagtcagatttttgttaaaaaaaaaaaaaaaaaaaaaaa

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