ID   WOX9_ORYSJ              Reviewed;         200 AA.
AC   Q8W0F1; A0A0P0VAH0; A0AAT2; B7ESU4; B9EUR4; Q0JHM7;
DT   15-MAR-2005, integrated into UniProtKB/Swiss-Prot.
DT   01-MAR-2002, sequence version 1.
DT   25-MAY-2022, entry version 113.
DE   RecName: Full=WUSCHEL-related homeobox 9;
DE   AltName: Full=OsWOX9;
DE   AltName: Full=Protein WOX5;
DE   AltName: Full=Quiescent-specific homeobox protein;
GN   Name=WOX9; Synonyms=QHB, WOX5;
GN   OrderedLocusNames=Os01g0854500, LOC_Os01g63510;
GN   ORFNames=B1096A10.8, OsJ_004011, P0529E05.42;
OS   Oryza sativa subsp. japonica (Rice).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC   Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX   NCBI_TaxID=39947;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12447438; DOI=10.1038/nature01184;
RA   Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA   Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA   Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA   Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA   Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA   Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA   Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA   Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA   Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA   Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA   Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA   Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA   Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT   "The genome sequence and structure of rice chromosome 1.";
RL   Nature 420:312-316(2002).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16100779; DOI=10.1038/nature03895;
RG   International rice genome sequencing project (IRGSP);
RT   "The map-based sequence of the rice genome.";
RL   Nature 436:793-800(2005).
RN   [3]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=18089549; DOI=10.1093/nar/gkm978;
RG   The rice annotation project (RAP);
RT   "The rice annotation project database (RAP-DB): 2008 update.";
RL   Nucleic Acids Res. 36:D1028-D1033(2008).
RN   [4]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA   Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA   Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA   Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA   Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using next
RT   generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA   Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA   Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA   Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA   Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA   Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA   Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA   Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA   Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA   Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA   Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA   Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA   Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA   Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA   McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT   "The genomes of Oryza sativa: a history of duplications.";
RL   PLoS Biol. 3:266-281(2005).
RN   [6]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12869764; DOI=10.1126/science.1081288;
RG   The rice full-length cDNA consortium;
RT   "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT   japonica rice.";
RL   Science 301:376-379(2003).
RN   [7]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 10-74.
RX   PubMed=16987950; DOI=10.1093/molbev/msl125;
RA   Nardmann J., Werr W.;
RT   "The shoot stem cell niche in angiosperms: expression patterns of WUS
RT   orthologues in rice and maize imply major modifications in the course of
RT   mono- and dicot evolution.";
RL   Mol. Biol. Evol. 23:2492-2504(2006).
RN   [8]
RP   FUNCTION, TISSUE SPECIFICITY, AND DEVELOPMENTAL STAGE.
RX   PubMed=12904206; DOI=10.1046/j.1365-313x.2003.01816.x;
RA   Kamiya N., Nagasaki H., Morikami A., Sato Y., Matsuoka M.;
RT   "Isolation and characterization of a rice WUSCHEL-type homeobox gene that
RT   is specifically expressed in the central cells of a quiescent center in the
RT   root apical meristem.";
RL   Plant J. 35:429-441(2003).
RN   [9]
RP   NOMENCLATURE.
RX   PubMed=17351053; DOI=10.1104/pp.107.095737;
RA   Dai M., Hu Y., Zhao Y., Liu H., Zhou D.-X.;
RT   "A WUSCHEL-LIKE HOMEOBOX gene represses a YABBY gene expression required
RT   for rice leaf development.";
RL   Plant Physiol. 144:380-390(2007).
CC   -!- FUNCTION: Transcription factor which may be involved in the
CC       specification and maintenance of the stem cells (QC cells) in the root
CC       apical meristem (RAM). {ECO:0000269|PubMed:12904206}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00108}.
CC   -!- TISSUE SPECIFICITY: Specifically expressed in the central cells of the
CC       quiescent center (QC) of the root. {ECO:0000269|PubMed:12904206}.
CC   -!- DEVELOPMENTAL STAGE: During embryogenesis and crown root formation, it
CC       is expressed prior to the morphological differentiation of the root.
CC       {ECO:0000269|PubMed:12904206}.
CC   -!- SIMILARITY: Belongs to the WUS homeobox family. {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=EEE55690.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR   EMBL; AP003279; BAB84412.1; -; Genomic_DNA.
DR   EMBL; AP003442; BAD82456.1; -; Genomic_DNA.
DR   EMBL; AP008207; BAF06751.1; -; Genomic_DNA.
DR   EMBL; AP014957; BAS75279.1; -; Genomic_DNA.
DR   EMBL; CM000138; EEE55690.1; ALT_SEQ; Genomic_DNA.
DR   EMBL; AK102203; BAG95441.1; -; mRNA.
DR   EMBL; AM234751; CAJ84143.1; -; mRNA.
DR   RefSeq; XP_015642985.1; XM_015787499.1.
DR   AlphaFoldDB; Q8W0F1; -.
DR   SMR; Q8W0F1; -.
DR   STRING; 4530.OS01T0854500-01; -.
DR   PaxDb; Q8W0F1; -.
DR   PRIDE; Q8W0F1; -.
DR   EnsemblPlants; Os01t0854500-01; Os01t0854500-01; Os01g0854500.
DR   GeneID; 4324824; -.
DR   Gramene; Os01t0854500-01; Os01t0854500-01; Os01g0854500.
DR   KEGG; osa:4324824; -.
DR   eggNOG; ENOG502RYVY; Eukaryota.
DR   HOGENOM; CLU_070454_2_0_1; -.
DR   InParanoid; Q8W0F1; -.
DR   OMA; HRLLTCY; -.
DR   OrthoDB; 1304054at2759; -.
DR   Proteomes; UP000000763; Chromosome 1.
DR   Proteomes; UP000007752; Chromosome 1.
DR   Proteomes; UP000059680; Chromosome 1.
DR   Genevisible; Q8W0F1; OS.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0003700; F:DNA-binding transcription factor activity; IEA:InterPro.
DR   GO; GO:0099402; P:plant organ development; IEA:InterPro.
DR   CDD; cd00086; homeodomain; 1.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR044555; WUSCHEL-like.
DR   PANTHER; PTHR45940; PTHR45940; 1.
DR   Pfam; PF00046; Homeodomain; 1.
DR   SMART; SM00389; HOX; 1.
DR   SUPFAM; SSF46689; SSF46689; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
PE   2: Evidence at transcript level;
KW   Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW   Transcription; Transcription regulation.
FT   CHAIN           1..200
FT                   /note="WUSCHEL-related homeobox 9"
FT                   /id="PRO_0000049372"
FT   DNA_BIND        10..74
FT                   /note="Homeobox; WUS-type"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          70..118
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        81..118
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   200 AA;  22821 MW;  D0B89F6CB40F4CB5 CRC64;
     MEALSGRVGV KCGRWNPTAE QVKVLTELFR AGLRTPSTEQ IQRISTHLSA FGKVESKNVF
     YWFQNHKARE RHHHKKRRRG ASSPDSGSND DDGRAAAHEG DADLVLQPPE SKREARSYGH
     HHRLMTCYVR DVVETEAMWE RPTREVETLE LFPLKSYDLE VDKVRYVRGG GGEQCREISF
     FDVAAGRDPP LELRLCSFGL