Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol PHYA
Gene Symbol Synonym phyA, PHYA* (phyA), PHYA*, Phya, PHY18, phy 18, OsPHYA
Gene Name Synonym PhytochromeA, Phytochrome A, Phytochrome-A
Allele phyA-2, phyA-4, osphyA-4
Chromosome No. 3
Explanation A2XLG5 (indica). Q10DU0 (japonica). AB109891 (japonica). X14172. a rice ortholog of Arabidopsis gene for circadian clock component.
Trait Class Biochemical character
cDNA Accession No. AK072482
MSU ID LOC_Os03g51030.1
RAP ID Os03g0719800
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
Gong P., Luo Y., Huang F., Chen Y., Zhao C., Wu X., Li K., Yang X., Cheng F., Xiang X., Wu C., Pan G.
Plant Mol. Biol. 2019  100(1-2)  133-149
Disruption of a Upf1-like helicase-encoding gene OsPLS2 triggers light-dependent premature leaf senescence 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.
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.
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., H. Kanegae, T. Shinomura, A. Miyao, H. Hirochika, and M. Furuya
Plant Cell 2001  13  521-534
Isolation and characterization of rice phytochrome A mutants.
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.
J F Martínez-García, P H Quail
Plant J. 1999  18(2)  173-83
The HMG-I/Y protein PF1 stimulates binding of the transcriptional activator GT-2 to the PHYA gene promoter.
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.
M Ni, K Dehesh, J M Tepperman, P H Quail
Plant Cell 1996  8(6)  1041-59
GT-2: in vivo transcriptional activation activity and definition of novel twin DNA binding domains with reciprocal target sequence selectivity.
Causse, M.A., T.M. Fulton, Y.G. Cho, S.N. Ahn, J. Chunwongse, K. Wu, J. Xiao, Z. Yu, P.C. Ronald, S.E. Harrington, G. Second, S.R. McCouch and S.D. Tanksley
Genetics 1994  138  1251-1274.
Saturated molecular map of the rice genome based on an interspecific backcross population.
Dehesh,K., Hung,H., Tepperman,J.M. and Quail,P.H.
EMBO J. 1992  11(11)  4131-4144
GT-2: a transcription factor with twin autonomous DNA-binding domains of closely related but different target sequence specificity.
Dehesh,K., Tepperman,J., Christensen,A.H. and Quail,P.H.
Mol. Gen. Genet. 1991  225(2)  305-313
phyB is evolutionarily conserved and constitutively expressed in rice seedling shoots.
Kay,S.A., Keith,B., Shinozaki,K. and Chua,N.H.
Nucleic Acids Res. 1989  17(7)  2865-2866
The sequence of the rice phytochrome gene.
Kay, S.A., B. Keith, K. Shinozaki, M.L. Chye and N.H. Chua
Plant Cell 1989  1  351-360.
The rice phytochrome gene Structure, autoregulated expression and binding of GT-1 to a conserved site in the 5' upstream region.
TextPresso Search Search textpresso for PHYA ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID GR:0060611
Gene Ontology signal transducer activity( GO:0004871 )
signal transduction( GO:0007165 )
red, far-red light phototransduction( GO:0009585 )
protein-tetrapyrrole linkage( GO:0017006 )
protein-chromophore linkage( GO:0018298 )
peptidyl-histidine phosphorylation( GO:0018106 )
ATP binding( GO:0005524 )
regulation of transcription, DNA-dependent( GO:0006355 )
protein histidine kinase activity( GO:0004673 )
membrane( GO:0016020 )
phototransduction( GO:0007602 )
regulation of transcription( GO:0045449 )
protein homodimerization activity( GO:0042803 )
G-protein coupled photoreceptor activity( GO:0008020 )
sensory perception( GO:0007600 )
transcription( GO:0006350 )
two-component sensor activity( GO:0000155 )
mitochondrion( GO:0005739 )
circadian rhythm( GO:0007623 )
Trait Ontology -
Plant Ontology -
Related Strains
Phenotype images
Last updated
Feb 23, 2020