Browse Element(s) Details


Os.5540.3.S1_x_at

Description gb:NM_189779.1
DB_XREF= gi:34906641
GEN=P0431G06.17
TID=Os.5540.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.5540 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) P0431G06.18 (P0431G06.18), mRNA
DEF=Oryza sativa (japonica cultivar-group) P0431G06.17 (P0431G06.17), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g7241011/11Leucine Rich Repeat family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g72370Os.12498.1.S1_at11/111+42298293..42304987Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os01g72360Os.12498.2.S1_at11/111+42298383..42300057expressed protein
LOC_Os01g72380Os.19497.1.S1_at11/111+42308965..42311893expressed protein
LOC_Os01g72390OsAffx.9670.1.S1_at11/111+42312927..42315705NB-ARC domain containing protein
LOC_Os01g72400OsAffx.30226.2.S1_s_at5/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.30226.4.S1_x_at5/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.30226.2.S1_x_at4/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.30226.4.S1_at4/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.442.1.S1_x_at4/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.24587.1.S1_x_at3/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72400OsAffx.442.1.S1_at1/111+42319326..42323294retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g72410Os.5540.3.S1_x_at11/111+42324333..42327708Leucine Rich Repeat family protein, expressed
LOC_Os01g72410Os.5540.1.A1_at10/111+42324333..42327708Leucine Rich Repeat family protein, expressed
LOC_Os01g72420Os.5540.2.S1_at11/111+42326677..42329626C2 domain containing protein, expressed
LOC_Os01g72430Os.26479.1.A1_a_at11/111+42330820..42336634NADPH-dependent FMN reductase family protein, putative, expressed
LOC_Os01g72430Os.26479.2.S1_at11/111+42330820..42336634NADPH-dependent FMN reductase family protein, putative, expressed
LOC_Os01g72430Os.26479.3.S1_x_at11/111+42330820..42336634NADPH-dependent FMN reductase family protein, putative, expressed
LOC_Os01g72430Os.26479.3.S1_at10/111+42330820..42336634NADPH-dependent FMN reductase family protein, putative, expressed
LOC_Os01g72440OsAffx.24014.1.S1_at11/111+42338035..42338356hypothetical protein
LOC_Os01g72450Os.42819.1.S1_x_at11/111+42339586..42340430DNA-binding protein, putative, expressed
LOC_Os01g72450Os.42819.1.S1_at11/111+42339586..42340430DNA-binding protein, putative, expressed
LOC_Os01g72460Os.24906.1.S1_at10/111+42344922..42346355NADPH:quinone oxidoreductase, putative, expressed
LOC_Os01g72470Os.51382.1.S1_at11/111+42347709..42348313expressed protein
LOC_Os01g72480Os.10877.1.S1_at11/111+42352542..42354833Zinc finger, C3HC4 type family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006952biological_processdefense response
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5540.3.S1_x_at--996--5431Chr01:42326173..42326197 (25 bp)
GAACCTCCATGGGATCAGAGCTGTT
LOC_Os01g72410
Os.5540.3.S1_x_at--726--1371Chr01:42326189..42326213 (25 bp)
AGAGCTGTTGCTTCCTCCAAGACTT
LOC_Os01g72410
Os.5540.3.S1_x_at--363--10771Chr01:42326212..42326236 (25 bp)
TTGAGAAGCTGGACCTGCGGCGCAC
LOC_Os01g72410
Os.5540.3.S1_x_at--732--6331Chr01:42326252..42326276 (25 bp)
GATGCATTTGCTTCATCCAGGAAAT
LOC_Os01g72410
Os.5540.3.S1_x_at--14--1391Chr01:42326353..42326377 (25 bp)
AGACGCTTCGTGTGAGGTTCCTGAA
LOC_Os01g72410
Os.5540.3.S1_x_at--213--4611Chr01:42326399..42326423 (25 bp)
GCGACTCAGAGCTTCATTTGGCAAG
LOC_Os01g72410
Os.5540.3.S1_x_at--22--211Chr01:42326414..42326438 (25 bp)
ATTTGGCAAGCTACGTTTTCTGGAG
LOC_Os01g72410
Os.5540.3.S1_x_at--388--6351Chr01:42326438..42326462 (25 bp)
GATGCGTGAATGTCCCAATCTAACT
LOC_Os01g72410
Os.5540.3.S1_x_at--1025--811Chr01:42326509..42326631 (25 bp)
ATGGTACCACGCATAGCAGCTGCAG
LOC_Os01g72410
Os.5540.3.S1_x_at--465--4591Chr01:42326777..42326801 (25 bp)
GCGCACTTCGGCATGGGTAACCAGT
LOC_Os01g72410
Os.5540.3.S1_x_at--116--4351Chr01:42326797..42326821 (25 bp)
CCAGTACAGAGTTGAGGCCGGCCAC
LOC_Os01g72410
Target Sequence 
GAACCTCCATGGGATCAGAGCTGTTGCTTCCTCCAAGACTTGAGAAGCTGGACCTGCGGCGCACCCCCATGGAGAACTTG
ATGCATTTGCTTCATCCAGGAAATGCTGAGAACTTGAAGAGACTGTATATTCGAGGAGGGAAGCTGAAGAGCTTTGGTGA
TGTGGAAGGTTGGAATGTCGAGACGCTTCGTGTGAGGTTCCTGAAAGTCTTGGAGTGTGATTGGGAGCGACTCAGAGCTT
CATTTGGCAAGCTACGTTTTCTGGAGATGCGTGAATGTCCCAATCTAACTTCATGGGAATGCGACGGCGAAGGTGTTTGG
AGGGAGGACGATGACAATGGTACCACGCATAGCAGCTGCAGTAGCTTGAATGGCGGAAGCGGTGGCGGCTGGTCGGGGTG
TGGGGTGTTGATGCTGTGCTACGCCGCCGGCAAGTGCAGGGGCAACTTCCACGCCAAGCAGCTGAGCCAGCGCGGCGAGC
TGCTCACCGTGGTGTGGCTGCTCGTGGCGCACTTCGGCATGGGTAACCAGTACAGAGTTGAGGCCGGCCAC

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.5540.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis