Browse Element(s) Details


OsAffx.27518.1.S1_at

Description gb:NM_195445.1
DB_XREF= gi:37532249
TID=OsAffx.27518.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retrotransposon protein (OSJNBa0004P12.19), mRNA.
PROD=putative retrotransposon protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1369011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g247101/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g13650OsAffx.20607.1.S1_at11/1110+7173929..7176395hypothetical protein
LOC_Os10g13660OsAffx.18247.1.S1_at11/1110+7177311..7178909hypothetical protein
LOC_Os10g13670Os.8029.1.S1_at11/1110+7179868..7184734RING zinc finger protein, putative, expressed
LOC_Os10g13680OsAffx.8359.1.S1_at11/1110+7188762..7190948retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g13690OsAffx.27518.1.S1_at11/1110+7192929..7199972retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g13690OsAffx.27518.3.S1_x_at4/1110+7192929..7199972retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g13690Os.52249.1.S1_at1/1110+7192929..7199972retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g13690OsAffx.22180.1.S1_at1/1110+7192929..7199972retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g13700Os.8805.1.S1_at11/1110+7203525..7209267Phosphoenolpyruvate carboxykinase, putative, expressed
LOC_Os10g13700Os.24219.1.A1_at1/1110+7203525..7209267Phosphoenolpyruvate carboxykinase, putative, expressed
LOC_Os10g13710OsAffx.30217.1.S1_x_at2/1110+7216381..7217870hypothetical protein
LOC_Os10g13710OsAffx.10222.1.S1_x_at1/1110+7216381..7217870hypothetical protein
LOC_Os10g13730NANA10+7222925..7224950Transposable element protein, putative, Retrotrans_gag

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.27518.1.S1_at--924--7851Chr10:7198530..7198554 (25 bp)
GGTATACAATGTCCGTCCATGGCAA
LOC_Os10g13690
OsAffx.27518.1.S1_at--128--8732Chr12:14169104..14169128 (25 bp)
TGTCTGCTAACCCAATATTTCATGC
LOC_Os12g24710
OsAffx.27518.1.S1_at--273--2571Chr10:7198654..7198678 (25 bp)
AACGGGTTGCGCAGAAGCTTCTTGA
LOC_Os10g13690
OsAffx.27518.1.S1_at--1000--5311Chr10:7199168..7199192 (25 bp)
GAAGGTGGCGTTGATCTGTCATTCT
LOC_Os10g13690
OsAffx.27518.1.S1_at--811--2451Chr10:7199195..7199219 (25 bp)
AACAATGGCAACTCAGGCAGTCCTG
LOC_Os10g13690
OsAffx.27518.1.S1_at--111--6051Chr10:7199258..7199354 (25 bp)
GAGTTACCGTTTGGGCGTGAATCGA
LOC_Os10g13690
OsAffx.27518.1.S1_at--828--1311Chr10:7199395..7199419 (25 bp)
AGATGGCGTGATTCGCTTGGGCCTC
LOC_Os10g13690
OsAffx.27518.1.S1_at--552--5651Chr10:7199430..7199454 (25 bp)
GACAGTTGCAGACCAGTGAGGCCTT
LOC_Os10g13690
OsAffx.27518.1.S1_at--343--7391Chr10:7199445..7199469 (25 bp)
GTGAGGCCTTTTGTGGCAGTGACCC
LOC_Os10g13690
OsAffx.27518.1.S1_at--20--1111Chr10:7199462..7199486 (25 bp)
AGTGACCCCGGCGAGGCACAAAGTG
LOC_Os10g13690
OsAffx.27518.1.S1_at--1066--7651Chr10:7199904..7199928 (25 bp)
GGGATACTCCCAGACATAAACAATG
LOC_Os10g13690
Target Sequence 
GGTATACAATGTCCGTCCATGGCAAGATTGTGGTGTGATAATTTGGGTGCAACTTATTTGTCTGCTAACCCAATATTTCA
TGCAAGGACAAAGCACATTGAAGTTTATTTCCATTTTGTGAGAGAACGGGTTGCGCAGAAGCTTCTTGAGATTGAGGGTG
CATCGGCGGTAGATGAGAAGATGGTGCGTACCGTTGGAGAAGGTGGCGTTGATCTGTCATTCTGCAACAATGGCAACTCA
GGCAGTCCTGATGATGAGGGAATCACGGAGGAGAAGAGGATCGAGATGGAGTTACCGTTTGGGCGTGAATCGAGGGGGTC
ACGCGGTGTCCGGCGAGGAGGTGCCAATCACGGAGATGGCGTGATTCGCTTGGGCCTCGGGGAGTGCCGACAGTTGCAGA
CCAGTGAGGCCTTTTGTGGCAGTGACCCCGGCGAGGCACAAAGTGCCAGCAGGCTGGCGCCACCACCGGTGGCTCATGAC
CCATGGCAAGGAGTTTCATGGGAATTATATGGGATACTCCCAGACATAAACAATG

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.27518.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis