Browse Element(s) Details


Os.5540.2.S1_at

Description gb:AK058479.1
DB_XREF= gi:32968497
TID=Os.5540.2
CNT=6
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.5540 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) P0431G06.18 (P0431G06.18), mRNA
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-016-C08, full insert sequence.
FL= gb:AK058479.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g7242011/11C2 domain containing 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_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
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5540.2.S1_at--80--1231Chr01:42328282..42328306 (25 bp)
AGTTCACCGAATCGCTGTCCAAGAT
LOC_Os01g72420
Os.5540.2.S1_at--539--4731Chr01:42328269..42328293 (25 bp)
GCTGTCCAAGATGAAGCTGCCGATG
LOC_Os01g72420
Os.5540.2.S1_at--422--3431Chr01:42328192..42328216 (25 bp)
CAGAGGTGAAGCTGCAGCCCAAGAA
LOC_Os01g72420
Os.5540.2.S1_at--885--6671Chr01:42327450..42327474 (25 bp)
GTTGCTGTTTCTACATCGACTTCAA
LOC_Os01g72420
Os.5540.2.S1_at--1017--2571Chr01:42327427..42327451 (25 bp)
AACGCGACTAACACCACGATCAGTT
LOC_Os01g72420
Os.5540.2.S1_at--528--1711Chr01:42327415..42327439 (25 bp)
ACCACGATCAGTTCTCCTGATTACA
LOC_Os01g72420
Os.5540.2.S1_at--101--8131Chr01:42327388..42327412 (25 bp)
GGACTGCCATGAACTTTCATTGCAA
LOC_Os01g72420
Os.5540.2.S1_at--494--2231Chr01:42327365..42327389 (25 bp)
AAATAGCTTCGAAATGCCAATGTAC
LOC_Os01g72420
Os.5540.2.S1_at--205--7031Chr01:42327344..42327368 (25 bp)
GTACAAGTCCAACATTTCTGCCGGT
LOC_Os01g72420
Os.5540.2.S1_at--82--3971Chr01:42327323..42327347 (25 bp)
CGGTCGTACACTTCAGTTCCTGAAG
LOC_Os01g72420
Os.5540.2.S1_at--1--7651Chr01:42327293..42327317 (25 bp)
GGGAGACAGTCTTCAGTCGTCACAA
LOC_Os01g72420
Target Sequence 
AGTTCACCGAATCGCTGTCCAAGATGAAGCTGCCGATGGAGCTCGACGGCGACAATGGCGTCGTCGTCCAGAAGGAGGAG
AAGCCGGAGGCAGAGGTGAAGCTGCAGCCCAAGAAGGATGGTGCAAGGGTGTTCTACGGAAGCAGAGCTTTCTTCTNGAA
CAAAAAGCAAACAAAAAAAAATTGCAGAGAGAAACAAATTAAGATGATCTCTTCTTGCAATTGCAAAAGTTATATCTCAG
CAATTCAATGCCATGTACGNAGCAAAATGCCAAAGAACAAAACAGAAGTTAGTGGTTGCTGTTTCTACATCGACTTCAAC
GCGACTAACACCACGATCAGTTCTCCTGATTACAATGGACTGCCATGAACTTTCATTGCAAATAGCTTCGAAATGCCAAT
GTACAAGTCCAACATTTCTGCCGGTCGTACACTTCAGTTCCTGAAGAAGCTGGGAGACAGTCTTCAGTCGTCACAA

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.5540.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis