Browse Element(s) Details


Os.53540.1.S1_at

Description gb:AK110993.1
DB_XREF= gi:32996202
TID=Os.53540.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53540 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-174-D12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-174-D12, full insert sequence.
FL= gb:AK110993.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g1237011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g12330OsAffx.12000.1.S1_at11/112+6418378..6419378hypothetical protein
LOC_Os02g12330OsAffx.12000.1.S1_x_at10/112+6418378..6419378hypothetical protein
LOC_Os02g12340OsAffx.12003.2.S1_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.2.S1_s_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.1.S1_at9/112+6422491..6424004hypothetical protein
LOC_Os02g12350Os.20204.2.S1_a_at11/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_s_at10/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_x_at3/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.28463.1.S1_x_at1/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12360Os.53409.1.A1_at11/112+6433220..6441415nuclear protein ZAP, putative, expressed
LOC_Os02g12370Os.53540.1.S1_at11/112+6443131..6445361expressed protein
LOC_Os02g12380Os.20204.1.S1_at11/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.3.S1_a_at11/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.1.S1_s_at10/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.1.S1_x_at10/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12390OsAffx.30226.4.S1_x_at5/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.2.S1_s_at5/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.4.S1_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.24587.1.S1_x_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.442.1.S1_x_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.1.S1_x_at3/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.2.S1_x_at3/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.1.S1_at2/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.19052.1.S1_at1/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.442.1.S1_at1/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12400Os.54164.1.S1_at11/112+6468826..6472843Leucine Rich Repeat family protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53540.1.S1_at--472--6511Chr02:6444786..6444810 (25 bp)
GATATGCTGCGTACCTGTGTTAAAC
LOC_Os02g12370
Os.53540.1.S1_at--1127--6751Chr02:6444804..6444828 (25 bp)
GTTAAACTCTCGTAGTGACCTTGTG
LOC_Os02g12370
Os.53540.1.S1_at--213--8931Chr02:6444819..6444843 (25 bp)
TGACCTTGTGCCATCTCAGCAGAAT
LOC_Os02g12370
Os.53540.1.S1_at--539--1212Chr10:21435219..21435238 (20 bp)
AGTTTTGAGCTTGCATTTTGCCGCA
NONE
Os.53540.1.S1_at--955--5811Chr02:6444887..6444911 (25 bp)
GACCCTGTGGTCGACACGTGTCAAG
LOC_Os02g12370
Os.53540.1.S1_at--428--891Chr02:6444943..6444967 (25 bp)
AGGCCTAGAGGTTCGCACTGTGAGT
LOC_Os02g12370
Os.53540.1.S1_at--629--6111Chr02:6444964..6444988 (25 bp)
GAGTGCCGCTTTAGGCATCACTGAG
LOC_Os02g12370
Os.53540.1.S1_at--625--10391Chr02:6445032..6445056 (25 bp)
TTTTGCGAGCTGATGGTCCCTTGTA
LOC_Os02g12370
Os.53540.1.S1_at--479--6171Chr02:6445063..6445087 (25 bp)
GAGGATGAGCCCACTGGTTTTGCTG
LOC_Os02g12370
Os.53540.1.S1_at--94--5231Chr02:6445105..6445129 (25 bp)
GAATATTTTAGTCTGCGCCGTAGCG
LOC_Os02g12370
Os.53540.1.S1_at--660--4931Chr02:6445155..6445179 (25 bp)
GCTTGTACTACTTTTCTTAGCCACA
LOC_Os02g12370
Target Sequence 
GATATGCTGCGTACCTGTGTTAAACTCTCGTAGTGACCTTGTGCCATCTCAGCAGAATTAGTTTTGAGCTTGCATTTTGC
CGCAAAGCCATGATCAAGATTGACCCTGTGGTCGACACGTGTCAAGTGGTGGGAGCAAAGAACCACATGCACTGTGGAGG
CCTAGAGGTTCGCACTGTGAGTGCCGCTTTAGGCATCACTGAGAATGCAAGCTGGAGATGGAGAAGTTAAAATCAAATTT
GTCATCTTTTGCGAGCTGATGGTCCCTTGTATCAGTGGAGGATGAGCCCACTGGTTTTGCTGGGAATGTTCTTTTTGCAG
AATATTTTAGTCTGCGCCGTAGCGTGTGATCTGCTGAGTAGAATATACTGCTTGTACTACTTTTCTTAGCCACA

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.53540.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis