Browse Element(s) Details


OsAffx.20540.1.S1_at

Description gb:NM_195710.1
DB_XREF= gi:37532779
TID=OsAffx.20540.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0093I09.16), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1792011/11retrotransposon protein, putative, unclassified, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g17870NANA10+8702326..8705512hypothetical protein
LOC_Os10g17880OsAffx.6686.1.S1_at9/1110+8707240..8709014hypothetical protein
LOC_Os10g17890OsAffx.30441.1.S1_at11/1110+8710622..8711533wall-associated kinase 3, putative
LOC_Os10g17900Os.9523.1.S1_at1/1110+8713170..8720349retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17910OsAffx.18277.1.S1_at11/1110+8724773..8726138Protein kinase domain containing protein
LOC_Os10g17920OsAffx.20540.1.S1_at11/1110+8728705..8730287retrotransposon protein, putative, unclassified, expressed
LOC_Os10g17930Os.46855.1.S1_at11/1110+8731422..8733068F-box domain containing protein, expressed
LOC_Os10g17940Os.46566.2.S1_x_at11/1110+8747152..8748591F-box domain containing protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20540.1.S1_at--1098--8251Chr10:8730192..8730216 (25 bp)
GGCAGCAGACCTCGGCAAACCAATG
LOC_Os10g17920
OsAffx.20540.1.S1_at--184--10091Chr10:8729194..8729218 (25 bp)
TAGGGTGATTCTGAAGTTAGACTTT
LOC_Os10g17920
OsAffx.20540.1.S1_at--165--10351Chr10:8729139..8729163 (25 bp)
TTTTTACAACAATCGTTGCGAATGA
LOC_Os10g17920
OsAffx.20540.1.S1_at--78--9391Chr10:8729127..8729151 (25 bp)
TCGTTGCGAATGAAGGATTTCTCTT
LOC_Os10g17920
OsAffx.20540.1.S1_at--833--7831Chr10:8729096..8729120 (25 bp)
GGTACAATTGGATTGACTCGACTAT
LOC_Os10g17920
OsAffx.20540.1.S1_at--1128--51Chr10:8729085..8729109 (25 bp)
ATTGACTCGACTATTAGGGCTGGGA
LOC_Os10g17920
OsAffx.20540.1.S1_at--934--5271Chr10:8729037..8729061 (25 bp)
GACATTGGCAGTTATTTTCAAACTA
LOC_Os10g17920
OsAffx.20540.1.S1_at--158--1271Chr10:8728957..8728981 (25 bp)
AGATATGCTAGCCATTTTAATGCAG
LOC_Os10g17920
OsAffx.20540.1.S1_at--217--3311Chr10:8728935..8728959 (25 bp)
CAGAGGGCAAAAGATCAGGGTAGAT
LOC_Os10g17920
OsAffx.20540.1.S1_at--619--6651Chr10:8728887..8728911 (25 bp)
GTTGATAATGGTCTCTCCATTTTAA
LOC_Os10g17920
OsAffx.20540.1.S1_at--998--2251Chr10:8728863..8728887 (25 bp)
AAATATGCCAATGATACTATTCTTT
LOC_Os10g17920
Target Sequence 
GGCAGCAGACCTCGGCAAACCAATGGTGGTGGAGGAGGCCGGGCGCAGGATAAAGAAGAATAGGGTGATTCTGAAGTTAG
ACTTTGAGAAAGCTTATGACAAAGTTGATTGGATGTTTTTACAACAATCGTTGCGAATGAAGGATTTCTCTTCTAAGTGG
TACAATTGGATTGACTCGACTATTAGGGCTGGGAGTGCGGCAGTCAAAGTAAATGATGACATTGGCAGTTATTTTCAAAC
TAGGAAAGATATGCTAGCCATTTTAATGCAGAGGGCAAAAGATCAGGGTAGATTCAAAGGAGTGGTACCTCACTTAGTTG
ATAATGGTCTCTCCATTTTAAAATATGCCAATGATACTATTCTTT

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.20540.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis