Browse Element(s) Details


Os.20280.1.S1_at

Description gb:AK067052.1
DB_XREF= gi:32977070
TID=Os.20280.1
CNT=6
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.20280 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013002B22, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013091C21, full insert sequence.
FL= gb:AK067052.1 gb:AK098901.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5001011/11chloroplast outer membrane translocon subunit, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g49990Os.4494.1.S1_at11/113+28461808..28464323gibberellin response modulator, putative, expressed
LOC_Os03g50010Os.20280.1.S1_at11/113+28482271..28490414chloroplast outer membrane translocon subunit, putative, expressed
LOC_Os03g50020Os.54774.1.S1_x_at1/113+28494424..28495071retrotransposon, putative, centromere-specific
LOC_Os03g50030Os.3160.1.S1_at11/113+28497524..28499113Phospholipase A2, putative, expressed
LOC_Os03g50040Os.27499.2.S1_a_at11/113+28501125..28504572phytanoyl-CoA dioxygenase, putative, expressed
LOC_Os03g50040Os.23310.1.A1_s_at11/113+28501125..28504572phytanoyl-CoA dioxygenase, putative, expressed
LOC_Os03g50040Os.23310.1.A1_x_at2/113+28501125..28504572phytanoyl-CoA dioxygenase, putative, expressed
LOC_Os03g50050OsAffx.13431.1.S1_at11/113+28506013..28507518F-box domain containing protein, expressed
LOC_Os03g50050OsAffx.28800.1.S1_x_at4/113+28506013..28507518F-box domain containing protein, expressed
LOC_Os03g50070Os.3167.1.S1_at11/113+28510130..28514165expressed protein
LOC_Os03g50080OsAffx.3560.1.S1_at11/113+28514772..28516004immunophilin, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009684biological_processindoleacetic acid biosynthesis
GO:0005739cellular_componentmitochondrion
GO:0004040molecular_functionamidase activity
GO:0016810molecular_functionhydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.20280.1.S1_at--1058--4851Chr03:28483312..28483457 (25 bp)
GCTAGCTAGTTACCGCCAAGCTGAG
LOC_Os03g50010
Os.20280.1.S1_at--669--3211Chr03:28482854..28482878 (25 bp)
CAAGGGAGATGCTGGGTTACTACAA
LOC_Os03g50010
Os.20280.1.S1_at--951--8811Chr03:28482681..28482847 (25 bp)
TGTTGATGATTTCAGCCACGCCCTT
LOC_Os03g50010
Os.20280.1.S1_at--11--1831Chr03:28482664..28482688 (25 bp)
ACGCCCTTGTTCTAGAACCCATGAA
LOC_Os03g50010
Os.20280.1.S1_at--983--2211Chr03:28482640..28482664 (25 bp)
ACAAGACAGCTGGTGTGGCCATCAA
LOC_Os03g50010
Os.20280.1.S1_at--393--1471Chr03:28482523..28482547 (25 bp)
AGAAGGTACCTGAGTGCCACCGATT
LOC_Os03g50010
Os.20280.1.S1_at--13--6351Chr03:28482498..28482522 (25 bp)
GATGCTGCTATCCAAGTTCATAAGG
LOC_Os03g50010
Os.20280.1.S1_at--176--2871Chr03:28482477..28482501 (25 bp)
AAGGTACTAACTACCGTTGCTACTG
LOC_Os03g50010
Os.20280.1.S1_at--1132--6651Chr03:28482462..28482486 (25 bp)
GTTGCTACTGGCGATAGAACTGTCT
LOC_Os03g50010
Os.20280.1.S1_at--186--5471Chr03:28482446..28482470 (25 bp)
GAACTGTCTATCATCTGTGTTTTCA
LOC_Os03g50010
Os.20280.1.S1_at--79--271Chr03:28482338..28482362 (25 bp)
ATATGCTCTAGTGGTGTTCTTGGCC
LOC_Os03g50010
Target Sequence 
GCTAGCTAGTTACCGCCAAGCTGAGGCAGATTGCACAAGTGCCATCGATNTTGATCCAAAGATTGTAAAAGCTTATTTGA
GGAGAGGCACTGCAAGGGAGATGCTGGGTTACTACAAGGAGGCTGTTGATGATTTCAGCCACGCCCTTGTTCTAGAACCC
ATGAACAAGACAGCTGGTGTGGCCATCAATAGGTTAAAGAAGCTATTTCCGTAAATACTGGGCTGTTGGATTTTTTTTCT
GCATAAAGATACNCAAGTTNTGNANNNNTGGGGGGTGAAAAAGAAGGTACCTGAGTGCCACCGATTGATGCTGCTATCCA
AGTTCATAAGGTACTAACTACCGTTGCTACTGGCGATAGAACTGTCTATCATCTGTGTTTTCAATTAGTTGTTACCCCCC
ANGTTTTGGAAAAGTGGAATCGAAAACAGAATTTTGGGAGTTGATCATAGTAAACAATGCCTTTAAATATGCTCTAGTGG
TGTTCTTGGCC

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.20280.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis