Browse Element(s) Details


OsAffx.20524.1.S1_at

Description gb:NM_195763.1
DB_XREF= gi:37532885
TID=OsAffx.20524.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative copia-like retrotransposon polyprotein (OSJNAb0008A05.20), mRNA.
PROD=putative copia-like retrotransposon polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1844011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g323006/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g18390OsAffx.2524.1.S1_at9/1110+9014097..9017101hypothetical protein
LOC_Os10g18390Os.56255.1.S1_x_at2/1110+9014097..9017101hypothetical protein
LOC_Os10g18390Os.56255.1.S1_at1/1110+9014097..9017101hypothetical protein
LOC_Os10g18390OsAffx.19264.1.S1_at1/1110+9014097..9017101hypothetical protein
LOC_Os10g18400Os.46702.1.S1_at11/1110+9017673..9025056Beta-galactosidase precursor, putative, expressed
LOC_Os10g18410OsAffx.18289.1.S1_at10/1110+9030786..9031094hypothetical protein
LOC_Os10g18420OsAffx.30226.2.S1_x_at11/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.30226.2.S1_s_at11/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.442.1.S1_x_at3/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.30226.4.S1_x_at3/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.30226.1.S1_at2/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.30226.1.S1_x_at2/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18420OsAffx.24587.1.S1_x_at1/1110+9031725..9035527retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g18430OsAffx.18290.1.S1_at11/1110+9035836..9036807agmatine coumaroyltransferase, putative
LOC_Os10g18430OsAffx.10096.1.S1_x_at1/1110+9035836..9036807agmatine coumaroyltransferase, putative
LOC_Os10g18440OsAffx.20524.1.S1_at11/1110+9038319..9042196retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18450OsAffx.30829.1.A1_at11/1110+9045662..9046599expressed protein
LOC_Os10g18460OsAffx.18291.1.S1_at9/1110+9049931..9050919hypothetical protein
LOC_Os10g18470OsAffx.20523.1.S1_x_at11/1110+9052638..9053192expressed protein
LOC_Os10g18470OsAffx.20523.1.S1_at11/1110+9052638..9053192expressed protein
LOC_Os10g18480Os.25230.2.A1_at4/1110+9054309..9055175Indole-3-acetate beta-glucosyltransferase, putative
LOC_Os10g18490NANA10+9057750..9058355Cytokinin-O-glucosyltransferase 2, putative, expressed
LOC_Os10g18500OsAffx.6691.1.S1_at11/1110+9059072..9059563hypothetical protein
LOC_Os10g18510NANA10+9061841..9064122UDP-glucoronosyl and UDP-glucosyl transferase family protein
LOC_Os10g18520NANA10+9064903..9065118hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20524.1.S1_at--613--8092Chr10:9039188..9039212 (25 bp)
GGAGCCTTCGTCAGCTTGATGTAAG
LOC_Os10g18440
OsAffx.20524.1.S1_at--539--3012Chr10:9039162..9039186 (25 bp)
AATGCTTTTCTGCATGGCATCCTAG
LOC_Os10g18440
OsAffx.20524.1.S1_at--327--271Chr10:9039125..9039149 (25 bp)
ATATGAGACAACCTCTAGGGTACGA
LOC_Os10g18440
OsAffx.20524.1.S1_at--1008--10031Chr10:9039110..9039134 (25 bp)
TAGGGTACGAGGTGTCTTCTCTTCC
LOC_Os10g18440
OsAffx.20524.1.S1_at--348--6931Chr10:9039030..9039054 (25 bp)
GTATGGTACTCTAGGTTGAGCACAA
LOC_Os10g18440
OsAffx.20524.1.S1_at--871--6532Chr10:9038990..9039014 (25 bp)
GATTTCAAGCATCCAAGGCTGATAC
LOC_Os10g18440
OsAffx.20524.1.S1_at--787--8332Chr10:9038974..9038998 (25 bp)
GGCTGATACATCTCTATTTTTCTAT
LOC_Os10g18440
OsAffx.20524.1.S1_at--763--9072Chr10:9038896..9038920 (25 bp)
TGCTAGTTCTATGCAAAGTGCTACT
LOC_Os10g18440
OsAffx.20524.1.S1_at--398--1131Chr10:9038880..9038904 (25 bp)
AGTGCTACTGCAGCTTTGTTACAAG
LOC_Os10g18440
OsAffx.20524.1.S1_at--1144--10192Chr10:9038811..9038835 (25 bp)
TATTTCCTTGGAATAGAAGCCACCA
LOC_Os10g18440
OsAffx.20524.1.S1_at--835--4371Chr10:9038416..9038437 (22 bp)
CCAAGATTGGGCAGGTTGTCTATAT
LOC_Os10g18440
Target Sequence 
GGAGCCTTCGTCAGCTTGATGTAAGCAATGCTTTTCTGCATGGCATCCTAGAGGAGGAGGTTTATATGAGACAACCTCTA
GGGTACGAGGTGTCTTCTCTTCCTAATCATGTTTGCAAATTAGATAAGGCTTTGTATGGTCTTAAACAAGCCCCTAGAGT
ATGGTACTCTAGGTTGAGCACAAAATTGCAAGAACTAGGATTTCAAGCATCCAAGGCTGATACATCTCTATTTTTCTATA
ATAAGGGTGTAGTGAGTATGTTTGTCTTGGTTTATGTTGATGACATATTTGTTGCTAGTTCTATGCAAAGTGCTACTGCA
GCTTTGTTACAAGACCTGAACAAAGAGTTTGCTCTGAAGGATCTTGGAGACCTTCATTATTTCCTTGGAATAGAAGCCAC
CAAGATTGGGCAGGTTGTCTATAT

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 OsAffx.20524.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis