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Basic Information
CGSNL Gene Symbol HD16
Gene Symbol Synonym Hd16, EL1, CK1, Hd16/CKI, Hd16/EL1
Gene Name Synonym EARLY FLOWERING 1, Early flowering1, Casein Kinase I
Chromosome No. 3
Explanation Under long day (14.5hr) treatment, this QTL introduced from Koshihikari to Nipponbare decreased the days to heading. Hd16 is involved in the photoperiodic flowering pathway by means of its phosphorylaion of Ghd7. The genome sequence of Hd16 in Nipponbare is the same as that of the wild-type allele of EL1. EL1 encodes the casein kinase I that phosphorylates SLR1. The genome sequence of Hd16 in Nipponbare is the same as that of the wild-type allele of EL1. LOC_Os03g57940.
Trait Class Biochemical character
Reproductive organ - Heading date
cDNA Accession No. AK121620
MSU ID LOC_Os03g57940.1
RAP ID Os03g0793500
Links Oryzabase Chromosome View ( IRGSP 1.0 / Build5 )
RAP-DB ( IRGSP 1.0 / Build5 )
Related IDs List ( IRGSP 1.0 / Build5 )
INSD Accession List
(Test version)
Link map Classical linkage map
Li Z., Gui R., Yu X., Liang C., Cui J., Zhao X., Zhang X., Yu P., Chen W., Sun J.
Front Plant Sci 2022  13  1059197
Genetic basis of the early heading of high-latitude weedy rice.
Kamrul Huda K.M., Akhter Banu M.S., Yadav S., Sahoo R.K., Tuteja R., Tuteja N.
Plant Physiology and Biochemistry 2014  82  229-238
Salinity and drought tolerant OsACA6 enhances cold tolerance in transgenic tobacco by interacting with stress-inducible proteins
Kwon C.T., Koo B.H., Kim D., Yoo S.C., Paek N.C.
Mol. Cells 2014   
Casein Kinases I and 2alpha Phosphorylate Oryza Sativa Pseudo-Response Regulator 37 (OsPRR37) in Photoperiodic Flowering in Rice.
Hori K., Ogiso-Tanaka E., Matsubara K., Yamanouchi U., Ebana K., Yano M.
Plant J. 2013  76(1)  36-46
Hd16, a gene for casein kinase I, is involved in the control of rice flowering time by modulating the day-length response.
Shibaya T., Nonoue Y., Ono N., Yamanouchi U., Hori K., Yano M.
Theor. Appl. Genet. 2011  123(7)  1133-43
Genetic interactions involved in the inhibition of heading by heading date QTL, Hd2 in rice under long-day conditions.
Ebana K,Shibaya T,Wu J,Matsubara K,Kanamori H,Yamane H,Yamanouchi U,Mizubayashi T,Kono I,Shomura A,Ito S,Ando T,Hori K,Matsumoto T,Yano M
Theor. Appl. Genet. 2011  122(6)  1199-210
Uncovering of major genetic factors generating naturally occurring variation in heading date among Asian rice cultivars.
Dai C., Hong-Wei Xue
The EMBO journal 2010  29(11)  1916-27
Rice early flowering1, a CKI, phosphorylates DELLA protein SLR1 to negatively regulate gibberellin signalling.
Tang X., Zhang Z.-Y., Zhang W.-J., Zhao X.-M., Li X., Zhang D., Liu Q.-Q., Tang W.-H.
Plant Physiol. 2010  154(4)  1855-1870
Global gene profiling of laser-captured pollen mother cells indicates molecular pathways and gene subfamilies involved in rice meiosis.
Matsubara,K., Kono,I., Hori,K., Nonoue,Y., Ono,N., Shomura,A., Mizubayashi,T., Yamamoto,S., Yamanouchi,U., Shirasawa,K., Nishio,T. and Yano,M.
Theor. Appl. Genet. 2008  117(6)  935-945
Novel QTLs for photoperiodic flowering revealed by using reciprocal backcross inbred lines from crosses between japonica rice cultivars
Takahashi,Y., Shomura,A., Sasaki,T. and Yano,M.
Proc. Natl. Acad. Sci. U.S.A. 2001  98(14)  7922-7927
Hd6, a rice quantitative trait locus involved in photoperiod sensitivity, encodes the alpha subunit of protein kinase CK2.
TextPresso Search Search textpresso for HD16 ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID -
Gene Ontology photoperiodism( GO:0009648 )
photoperiodism, flowering( GO:0048573 )
regulation of photoperiodism, flowering( GO:2000028 )
Trait Ontology flowering time( TO:0002616 )
days to heading( TO:0000137 )
Plant Ontology -
Related Strains
Phenotype images
Last updated
Jun 5, 2023