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Basic Information
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CGSNL Gene Symbol
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PHYA
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Gene Symbol Synonym
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phyA, PHYA* (phyA), PHYA*, Phya, PHY18, phy 18, OsPHYA
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CGSNL Gene Name
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PHYTOCHROME A
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Gene Name Synonym
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PhytochromeA, Phytochrome A, Phytochrome-A
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Protein Name
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PHYTOCHROME A
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Allele
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phyA-2, phyA-4, osphyA-4
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Chromosome No.
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3
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Explanation
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A2XLG5 (indica). Q10DU0 (japonica). AB109891 (japonica). X14172. a rice ortholog of Arabidopsis gene for circadian clock component.
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Trait Class
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Biochemical character
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Expression
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Sequence/Locus
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cDNA Accession No.
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AK072482
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MSU ID
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LOC_Os03g51030.1
LOC_Os03g51030.2
LOC_Os03g51030.3
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RAP ID
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Os03g0719800
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Links
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Oryzabase Chromosome View
(
IRGSP 1.0
/
Build5
)
RAP-DB
(
IRGSP 1.0
/
Build5
)
Related IDs List (
IRGSP 1.0
/
Build5
)
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INSD Accession List
(Test version)
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Link to INSD Accession List
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Map
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Locate(cM)
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Link map
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Classical linkage map
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References
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Lei Y., Ma Q., Zhang Y., Li J., Ning X., Wang Y., Ge X., Zhao H., Lin H.
Front Plant Sci 2024 15 1340260
Functional dissection of Phytochrome A in plants.
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Zheng T., Sun J., Zhou S., Chen S., Lu J., Cui S., Tian Y., Zhang H., Cai M., Zhu S., Wu M., Wang Y., Jiang L., Zhai H., Wang H., Wan J.
New Phytol. 2019 224(1) 306-320
Post-transcriptional regulation of Ghd7 protein stability by phytochrome and OsGI in photoperiodic control of flowering in rice.
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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.
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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.
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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.
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Osugi A., Itoh H., Ikeda-Kawakatsu K., Takano M., Izawa T.
Plant Physiol. 2011 157(3) 1128-37
Molecular dissection of the roles of phytochrome in photoperiodic flowering in rice.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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DB Reference
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Gramene ID
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GR:0060611
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Ontologies
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Gene Ontology
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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 )
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Trait Ontology
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-
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Plant Ontology
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-
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Related Strains
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Phenotype images
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Last updated
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Jul 10, 2024
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Update info.