ID   KNOS7_ORYSJ             Reviewed;         365 AA.
AC   Q948L5; Q0DNY3; Q9SXM7; Q9XIV7;
DT   20-JAN-2009, integrated into UniProtKB/Swiss-Prot.
DT   01-DEC-2001, sequence version 1.
DT   03-AUG-2022, entry version 118.
DE   RecName: Full=Homeobox protein knotted-1-like 7;
DE   AltName: Full=Homeobox protein HOS13;
DE   AltName: Full=Homeobox protein OSH3;
GN   Name=OSH3; Synonyms=HOS13; OrderedLocusNames=Os03g0727200, LOC_Os03g51710;
GN   ORFNames=OSJNBa0013A09.3;
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 [MRNA] (ISOFORM 2), FUNCTION, AND DEVELOPMENTAL STAGE.
RC   STRAIN=cv. Nipponbare; TISSUE=Embryo;
RX   PubMed=10488233; DOI=10.2307/3871044;
RA   Sentoku N., Sato Y., Kurata N., Ito Y., Kitano H., Matsuoka M.;
RT   "Regional expression of the rice KN1-type homeobox gene family during
RT   embryo, shoot, and flower development.";
RL   Plant Cell 11:1651-1664(1999).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
RC   STRAIN=cv. Nipponbare;
RA   Sato Y., Fukuda Y., Hirano H.;
RT   "Evidence for the selection at KNOTTED1-like homobox gene, OSH3, locus in
RT   rice.";
RL   Submitted (SEP-2001) to the EMBL/GenBank/DDBJ databases.
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16109971; DOI=10.1101/gr.3869505;
RG   The rice chromosome 3 sequencing consortium;
RA   Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA   Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA   Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA   Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA   Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA   Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA   Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA   Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA   Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA   Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA   O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA   Jin W., Lee H.R., Jiang J., Jackson S.;
RT   "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT   and diverged grass species.";
RL   Genome Res. 15:1284-1291(2005).
RN   [4]
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   [5]
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   [6]
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   [7]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 144-365, AND DEVELOPMENTAL STAGE.
RC   STRAIN=cv. Nipponbare; TISSUE=Embryo;
RX   PubMed=10095070; DOI=10.1016/s0167-4781(99)00023-8;
RA   Ito Y., Eiguchi M., Kurata N.;
RT   "Expression of novel homeobox genes in early embryogenesis in rice.";
RL   Biochim. Biophys. Acta 1444:445-450(1999).
RN   [8]
RP   GENE FAMILY, AND NOMENCLATURE.
RX   PubMed=18430022; DOI=10.1111/j.1742-4658.2008.06424.x;
RA   Jain M., Tyagi A.K., Khurana J.P.;
RT   "Genome-wide identification, classification, evolutionary expansion and
RT   expression analyses of homeobox genes in rice.";
RL   FEBS J. 275:2845-2861(2008).
CC   -!- FUNCTION: Probable transcription factor that may be involved in shoot
CC       formation during embryogenesis. {ECO:0000269|PubMed:10488233}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00108,
CC       ECO:0000255|PROSITE-ProRule:PRU00559}.
CC   -!- ALTERNATIVE PRODUCTS:
CC       Event=Alternative splicing; Named isoforms=2;
CC       Name=1;
CC         IsoId=Q948L5-1; Sequence=Displayed;
CC       Name=2;
CC         IsoId=Q948L5-2; Sequence=VSP_036182;
CC   -!- DEVELOPMENTAL STAGE: Highly expressed in the early globular stage
CC       embryo before 2 days after pollination (DAP), as well as in the
CC       endosperm. At 3 DAP, expression is down-regulated in the central region
CC       and in the center of the ventral region of the embryo, where the shoot
CC       subsequently forms, but weakly expressed in other regions until 4 DAP,
CC       and then disappears after 4 DAP. During transition between the
CC       inflorescence and floral phases, expressed in the inflorescence
CC       meristems but not in the floral meristem. {ECO:0000269|PubMed:10095070,
CC       ECO:0000269|PubMed:10488233}.
CC   -!- SIMILARITY: Belongs to the TALE/KNOX homeobox family.
CC       {ECO:0000255|PROSITE-ProRule:PRU00559}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BAA79223.1; Type=Frameshift; Evidence={ECO:0000305};
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DR   EMBL; AB028882; BAA79223.1; ALT_FRAME; mRNA.
DR   EMBL; AB071663; BAB68309.1; -; mRNA.
DR   EMBL; AC145380; AAS07153.1; -; Genomic_DNA.
DR   EMBL; DP000009; ABF98655.1; -; Genomic_DNA.
DR   EMBL; AP008209; BAF13055.1; -; Genomic_DNA.
DR   EMBL; AP014959; BAS86186.1; -; Genomic_DNA.
DR   EMBL; AB007625; BAA77819.1; -; mRNA.
DR   RefSeq; XP_015628822.1; XM_015773336.1. [Q948L5-1]
DR   AlphaFoldDB; Q948L5; -.
DR   SMR; Q948L5; -.
DR   STRING; 4530.OS03T0727200-00; -.
DR   PaxDb; Q948L5; -.
DR   PRIDE; Q948L5; -.
DR   EnsemblPlants; Os03t0727200-00; Os03t0727200-00; Os03g0727200. [Q948L5-2]
DR   GeneID; 4333975; -.
DR   Gramene; Os03t0727200-00; Os03t0727200-00; Os03g0727200. [Q948L5-2]
DR   KEGG; osa:4333975; -.
DR   eggNOG; KOG0773; Eukaryota.
DR   HOGENOM; CLU_040111_0_1_1; -.
DR   InParanoid; Q948L5; -.
DR   OMA; MEELEGH; -.
DR   OrthoDB; 961241at2759; -.
DR   Proteomes; UP000000763; Chromosome 3.
DR   Proteomes; UP000059680; Chromosome 3.
DR   Genevisible; Q948L5; OS.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR   GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   CDD; cd00086; homeodomain; 1.
DR   InterPro; IPR005539; ELK_dom.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR008422; Homeobox_KN_domain.
DR   InterPro; IPR005540; KNOX1.
DR   InterPro; IPR005541; KNOX2.
DR   Pfam; PF03789; ELK; 1.
DR   Pfam; PF05920; Homeobox_KN; 1.
DR   Pfam; PF03790; KNOX1; 1.
DR   Pfam; PF03791; KNOX2; 1.
DR   SMART; SM01188; ELK; 2.
DR   SMART; SM00389; HOX; 1.
DR   SMART; SM01255; KNOX1; 1.
DR   SMART; SM01256; KNOX2; 1.
DR   SUPFAM; SSF46689; SSF46689; 1.
DR   PROSITE; PS51213; ELK; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
PE   2: Evidence at transcript level;
KW   Alternative splicing; DNA-binding; Homeobox; Nucleus; Reference proteome.
FT   CHAIN           1..365
FT                   /note="Homeobox protein knotted-1-like 7"
FT                   /id="PRO_0000360009"
FT   DOMAIN          227..247
FT                   /note="ELK"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00559"
FT   DNA_BIND        248..311
FT                   /note="Homeobox; TALE-type"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          1..20
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   VAR_SEQ         136..139
FT                   /note="DQFM -> KLVT (in isoform 2)"
FT                   /evidence="ECO:0000303|PubMed:10488233"
FT                   /id="VSP_036182"
FT   CONFLICT        171
FT                   /note="L -> LEL (in Ref. 1; BAA79223)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   365 AA;  40037 MW;  FFC5346C7B5210DE CRC64;
     MEELEGHRGE GRLPPPPPLL PFPKVSVQVY TVPSSSTAAS AAAAGGARQA VAPATRDGGD
     GGGRAAGVLD DPVKARIVSH PRYHRLLAAF LDCHKVGCPA EAAEEIAAAA RVREARQRAA
     AAASRMPPAP EDPELDQFME DYCKLLVECK EELSRPLQEA EEFLRTVESE LNSINSGPPL
     TALISESKAG LDSSDDDEHE DGSGMEMMEA AEDEDLGIID PRSDDKALKR HLLRKYSGYL
     GGLRKELSKK RKKGKLPKEA RQKLLTWWEL HYRWPNPSEM EKIALAESTG LEQKQINNCF
     INQRKRHWKP TEEMEFAVME AYHHQSTDAA AAFYVDVDAR LVGATAAAPA SAVYTARPDH
     GVWRA