Browse Element(s) Details


Os.53075.1.S1_at

Description gb:AK070708.1
DB_XREF= gi:32980732
TID=Os.53075.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53075 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033145K21, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023060D19, full insert sequence.
FL= gb:AK103789.1 gb:AK070708.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g2803011/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os09g173292/11expressed protein
LOC_Os12g171201/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g27980Os.40360.1.S1_at9/118+16914881..16921210transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27980Os.40360.1.S1_x_at7/118+16914881..16921210transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27980OsAffx.15821.2.S1_at4/118+16914881..16921210transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27980Os.40855.5.S1_x_at3/118+16914881..16921210transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27980OsAffx.22548.1.S1_at1/118+16914881..16921210transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27990OsAffx.20490.1.S1_at5/118+16923520..16924946transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g27990Os.2358.1.S1_at4/118+16923520..16924946transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g28000NANA8+16927378..16927958hypothetical protein
LOC_Os08g28010Os.44418.2.S1_at6/118+16928327..16932794expressed protein
LOC_Os08g28010Os.44418.1.S1_at3/118+16928327..16932794expressed protein
LOC_Os08g28020NANA8+16938342..16939008retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g28030Os.53075.1.S2_at11/118+16941988..16944365retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os08g28030Os.53075.1.S1_at11/118+16941988..16944365retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os08g28040NANA8+16946066..16949158retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g28050NANA8+16964011..16964608retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
GO:0008219biological_processcell death
GO:0009751biological_processresponse to salicylic acid stimulus
GO:0009816biological_processdefense response to pathogenic bacteria, incompatible interaction
GO:0016020cellular_componentmembrane
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53075.1.S1_at--513--1858Chr06:22742014..22742036 (23 bp)
ACGACTCCATCTCCAGTGGGAGGGT
NONE
Os.53075.1.S1_at--1140--9472Chr08:16943748..16943772 (25 bp)
TCTCCAGTGGGAGGGTGCAAAGCTC
LOC_Os08g28030
Os.53075.1.S1_at--564--7232Chr08:16943701..16943725 (25 bp)
GTCCATCCATGGGTGGTACAATACT
LOC_Os08g28030
Os.53075.1.S1_at--876--7791Chr08:16943647..16943671 (25 bp)
GGTCCGGCGTTCATCGAGGCAGTTA
LOC_Os08g28030
Os.53075.1.S1_at--862--8351Chr08:16943642..16943666 (25 bp)
GGCGTTCATCGAGGCAGTTATTGGA
LOC_Os08g28030
Os.53075.1.S1_at--483--8251Chr08:16943560..16943584 (25 bp)
GGCACGATCGGAGTGGCAGACATAC
LOC_Os08g28030
Os.53075.1.S1_at--836--7251Chr08:16943482..16943506 (25 bp)
GTCCTCCTTGTCGATCGTCGATGAA
LOC_Os08g28030
Os.53075.1.S1_at--430--7852Chr09:10609182..10609226 (25 bp)
GGTAGACATACCTTCTGTTCTTCGC
LOC_Os09g17329
Os.53075.1.S1_at--331--6734Chr12:9797585..9797605 (21 bp)
GTTCTTCGCTTTTCCTGTAGATCAA
LOC_Os12g17120
Os.53075.1.S1_at--161--6451Chr08:16943355..16943379 (25 bp)
GATCAAAAAAGCGAGGTTTCTTCCT
LOC_Os08g28030
Os.53075.1.S1_at--1133--10671Chr08:16943335..16943359 (25 bp)
TTCCTTCTTTCTTTCACTTCGAGAT
LOC_Os08g28030
Target Sequence 
ACGACTCCATCTCCAGTGGGAGGGTGCAAAGCTCGCCACCGGGAGAGGCCACCGCCGTCCATCCATGGGTGGTACAATAC
TGTACCCCCTGGACTTGGACGCGGTTAGGAGGTCCGGCGTTCATCGAGGCAGTTATTGGAGGAGAAGGTGCAGCGATCGG
TGGAGAAGGAGTAGGCGCGTCAGGGACCAGCGGGGCAGGCACGATCGGAGTGGCAGACATACGGCGGCGAGGGTAGTGGC
GCCGGCCACCAACCCCCACCATGAGATCCCGGCGCGTCCTCCTTGTCGATCGTCGATGAAGATGGCAAAGACGGCGTGCG
TGATCATGGCGAGGGATGCCGAGAATGGCATCGAGGATGGAAATAAAGGTAGACATACCTTCTGTTCTTCGCTTTTCCTG
TAGATCAAAAAAGCGAGGTTTCTTCCTTCTTTCTTTCACTTCGAGAT

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.53075.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis