Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol LHD3
Gene Symbol Synonym PHYC, OsPHYC, OsPHYCa, OsPHYCb, OsLHD3
Gene Name Synonym PhytochromeC, Phytochrome C, late heading date 3
Allele phyC-1, lhd3
Chromosome No. 3
Explanation A2XM23(indica), Q10CQ8(japonica). AB018442(Japonica). U61207. a rice ortholog of Arabidopsis gene for circadian clock component.
Trait Class Biochemical character
Vegetative organ - Leaf
Reproductive organ - Heading date
Coloration - Chlorophyll
Tolerance and resistance - Stress tolerance
cDNA Accession No. AK060467
MSU ID LOC_Os03g54084.1
RAP ID Os03g0752100
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 to INSD Accession List
Link map Classical linkage map
Lin X., Huang Y., Rao Y., Ouyang L., Zhou D., Zhu C., Fu J., Chen C., Yin J., Bian J., He H., Zou G., Xu J.
BMC Plant Biol. 2022  22(1)  612
A base substitution in OsphyC disturbs its Interaction with OsphyB and affects flowering time and chlorophyll synthesis in rice.
Matsuzaki J., Kawahara Y., Izawa T.
Plant Cell 2015  27(3)  633-48
Punctual Transcriptional Regulation by the Rice Circadian Clock under Fluctuating Field Conditions.
Hirose F., Inagaki N., Takano M.
Plant Signal Behav 2013  8(3) 
Differences and similarities in the photoregulation of gibberellin metabolism between rice and dicots.
Takano M,Inagaki N,Xie X,Kiyota S,Baba-Kasai A,Tanabata T,Shinomura T
Proc. Natl. Acad. Sci. U.S.A. 2009  106(34)  14705-10
Phytochromes are the sole photoreceptors for perceiving red/far-red light in rice.
Pareek A, Singh A, Kumar M, Kushwaha HR, Lynn AM, Singla-Pareek SL.
Plant Physiol. 2006  142(2)  380-97
Whole-genome analysis of Oryza sativa reveals similar architecture of two-component signaling machinery with Arabidopsis.
Ishikawa R., Tamaki S., Yokoi S., Inagaki N., Shinomura T., Takano M., Shimamoto K.
Plant Cell 2005  17(12)  3326-36
Suppression of the floral activator Hd3a is the principal cause of the night break effect in rice.
Takano,M., Inagaki,N., Xie,X., Yuzurihara,N., Hihara,F., Ishizuka,T., Yano,M., Nishimura,M., Miyao,A., Hirochika,H. and Shinomura,T.
Plant Cell 2005  17(12)  3311-3325
Distinct and cooperative functions of phytochromes a, B, and C in the control of deetiolation and flowering in rice.
Basu,D., Dehesh,K., Schneider-Poetsch,H.J., Harrington,S.E., McCouch,S.R. and Quail,P.H.
Plant Mol. Biol. 2000  44(1)  27-42
Rice PHYC gene: structure, expression, map position and evolution.
Mathews,S. and Sharrock,R.A.
Mol. Biol. Evol. 1996  13(8)  1141-1150
The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms.
TextPresso Search Search textpresso for LHD3 ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID -
Gene Ontology vegetative to reproductive phase transition( GO:0010228 )
regulation of timing of transition from vegetative to reproductive phase( GO:0048510 )
response to absence of light( GO:0009646 )
response to light stimulus( GO:0009416 )
photoperiodism( GO:0009648 )
regulation of chlorophyll biosynthetic process( GO:0010380 )
long-day photoperiodism, flowering( GO:0048574 )
short-day photoperiodism, flowering( GO:0048575 )
photoperiodism, flowering( GO:0048573 )
transcription( GO:0006350 )
red, far-red light phototransduction( GO:0009585 )
regulation of transcription, DNA-dependent( GO:0006355 )
sensory perception( GO:0007600 )
membrane( GO:0016020 )
protein-tetrapyrrole linkage( GO:0017006 )
peptidyl-histidine phosphorylation( GO:0018106 )
protein-chromophore linkage( GO:0018298 )
protein homodimerization activity( GO:0042803 )
two-component sensor activity( GO:0000155 )
ATP binding( GO:0005524 )
G-protein coupled photoreceptor activity( GO:0008020 )
circadian rhythm( GO:0007623 )
Trait Ontology flowering time( TO:0002616 )
days to heading( TO:0000137 )
light sensitivity( TO:0000075 )
light intensity sensitivity( TO:0000460 )
leaf color( TO:0000326 )
chlorophyll content( TO:0000495 )
leaf number( TO:0000241 )
tiller number( TO:0000346 )
Plant Ontology -
Related Strains
Phenotype images
Last updated
Jun 7, 2023