Browse Element(s) Details


Os.272.1.S1_at

Description gb:AB109891.1
DB_XREF= gi:30578175
GEN=PHYA
TID=Os.272.1
CNT=15
FEA=FLmRNA
TIER=FL+Stack
STK=7
UG=Os.272 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) PHYA mRNA for phytochrome A, complete cds.
PROD=phytochrome A
FL= gb:AK072482.1 gb:AB109891.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5103011/11Phytochrome A, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g51000Os.46088.1.S1_s_at11/113+29088237..290961233,4-dihydroxy-2-butanone kinase, putative, expressed
LOC_Os03g51010Os.8043.1.S1_at11/113+29100698..29104260hydrolase, alpha/beta fold family protein, expressed
LOC_Os03g51020Os.17861.1.S2_at11/113+29108530..29115730protein kinase, putative, expressed
LOC_Os03g51020Os.17861.1.S1_at11/113+29108530..29115730protein kinase, putative, expressed
LOC_Os03g51030Os.272.1.S1_at11/113+29118715..29126579Phytochrome A, putative, expressed
LOC_Os03g51030Os.47842.1.A1_s_at11/113+29118715..29126579Phytochrome A, putative, expressed
LOC_Os03g51040OsAffx.13452.1.S1_at10/113+29131475..29133714Protein kinase domain containing protein
LOC_Os03g51050Os.38367.1.S1_s_at11/113+29135580..29140934Peptide transporter PTR2, putative, expressed
LOC_Os03g51060NANA3+29141702..29142233Leucine-rich repeat receptor protein kinase EXS precursor, putative
LOC_Os03g51080Os.9438.1.S1_at11/113+29150783..29159315Glutamate decarboxylase, putative, expressed
LOC_Os03g51080Os.17946.1.A1_x_at11/113+29150783..29159315Glutamate decarboxylase, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0009630biological_processgravitropism
GO:0009638biological_processphototropism
GO:0009649biological_processentrainment of circadian clock
GO:0010017biological_processred or far red light signaling pathway
GO:0010201biological_processresponse to high irradiance
GO:0010202biological_processresponse to low fluence red light
GO:0010203biological_processresponse to very low fluence red light
GO:0010218biological_processresponse to far red light
GO:0005634cellular_componentnucleus
GO:0005737cellular_componentcytoplasm
GO:0004673molecular_functionprotein histidine kinase activity
GO:0004871molecular_functionsignal transducer activity
GO:0008020molecular_functionG-protein coupled photoreceptor activity
GO:0009883molecular_functionred or far-red light photoreceptor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.272.1.S1_at--537--2371Chr03:29120132..29120156 (25 bp)
AAACCTTCATCTCATAGACCTAGAA
LOC_Os03g51030
Os.272.1.S1_at--666--10531Chr03:29120127..29120151 (25 bp)
TTCATCTCATAGACCTAGAACTTAG
LOC_Os03g51030
Os.272.1.S1_at--618--5471Chr03:29120008..29120134 (25 bp)
GAACTTAGGATCAAGCACCAGGGCA
LOC_Os03g51030
Os.272.1.S1_at--784--2711Chr03:29119996..29120020 (25 bp)
AAGCACCAGGGCAAAGGAGTCCCAG
LOC_Os03g51030
Os.272.1.S1_at--554--2311Chr03:29119984..29120008 (25 bp)
AAAGGAGTCCCAGCAGATCTGCTGT
LOC_Os03g51030
Os.272.1.S1_at--488--6411Chr03:29119969..29119993 (25 bp)
GATCTGCTGTCACAAATGTACGAGG
LOC_Os03g51030
Os.272.1.S1_at--433--5031Chr03:29119931..29119955 (25 bp)
GCAGTCGGATGAAGGCATGAGTCTT
LOC_Os03g51030
Os.272.1.S1_at--93--931Chr03:29119919..29119943 (25 bp)
AGGCATGAGTCTTGCGGTTTCTAGA
LOC_Os03g51030
Os.272.1.S1_at--237--6831Chr03:29119903..29119927 (25 bp)
GTTTCTAGAAACCTGCTGAGGCTCA
LOC_Os03g51030
Os.272.1.S1_at--492--3851Chr03:29119888..29119912 (25 bp)
CTGAGGCTCATGAATGGCGATGTCC
LOC_Os03g51030
Os.272.1.S1_at--1034--9611Chr03:29119881..29119905 (25 bp)
TCATGAATGGCGATGTCCGACATAT
LOC_Os03g51030
Target Sequence 
AAACCTTCATCTCATAGACCTAGAACTTAGGATCAAGCACCAGGGCAAAGGAGTCCCAGCAGATCTGCTGTCACAAATGT
ACGAGGATGACAATAAGGAGCAGTCGGATGAAGGCATGAGTCTTGCGGTTTCTAGAAACCTGCTGAGGCTCATGAATGGC
GATGTCCGACATAT

BLASTn GenBank NR

Expression Profiles Gene Chronologer
Gene Chronologer (Grouped)
Heterosis View
Gene Correlator (coexpression analysis)
SALK RiceGE
Rice MPSS  MPSS logo
RiceArray Coexpression Database
Miscellaneous SNP data between Minghui 63 and Zhenshan 97 from OryzaSNP project:
extend bp around Os.272.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis