Browse Element(s) Details


OsAffx.20488.2.S1_at

Description gb:NM_195937.1
DB_XREF= gi:37533233
TID=OsAffx.20488.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNAb0078C13.21), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2096011/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g20890Os.46579.1.S1_at11/1110+10255920..10256586Cortical cell delineating protein precursor, putative, expressed
LOC_Os10g20900OsAffx.15017.2.S1_at10/1110+10257119..10258129hypothetical protein
LOC_Os10g20900OsAffx.15017.2.S1_x_at10/1110+10257119..10258129hypothetical protein
LOC_Os10g20910OsAffx.30469.1.S1_x_at11/1110+10259765..10260032hypothetical protein
LOC_Os10g20910OsAffx.30469.1.S1_at11/1110+10259765..10260032hypothetical protein
LOC_Os10g20920OsAffx.8244.1.S1_at10/1110+10261647..10264181retrotransposon protein, putative, unclassified
LOC_Os10g20930OsAffx.8243.1.S1_at11/1110+10265106..10268949retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g20940NANA10+10270713..10272248retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g20950OsAffx.248.1.S1_x_at2/1110+10273101..10273409hypothetical protein
LOC_Os10g20960OsAffx.20488.2.S1_at11/1110+10274779..10282409retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g20970OsAffx.7362.1.S1_x_at1/1110+10283282..10288080transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g20970Os.46314.3.S1_at1/1110+10283282..10288080transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g20980OsAffx.23366.1.S1_at1/1110+10290691..10294177transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g20980OsAffx.23366.2.S1_s_at1/1110+10290691..10294177transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g20990OsAffx.28576.1.S1_x_at11/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g20990OsAffx.28576.3.S1_at11/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g20990OsAffx.28576.2.S1_x_at10/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g20990Os.26532.2.S1_x_at2/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g20990OsAffx.25312.1.S1_at1/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g20990Os.57454.1.S1_x_at1/1110+10294530..10298861Ribosomal protein S12 containing protein
LOC_Os10g21000Os.7485.1.S1_at11/1110+10306061..10310495nucleoside phosphatase family protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20488.2.S1_at--962--6651Chr10:10282345..10282369 (25 bp)
GTTGCTGCATCAAGCACGACCACAA
LOC_Os10g20960
OsAffx.20488.2.S1_at--43--10731Chr10:10282346..10282370 (25 bp)
TTGCTGCATCAAGCACGACCACAAT
LOC_Os10g20960
OsAffx.20488.2.S1_at--950--9111Chr10:10282347..10282371 (25 bp)
TGCTGCATCAAGCACGACCACAATG
LOC_Os10g20960
OsAffx.20488.2.S1_at--26--4771Chr10:10282348..10282372 (25 bp)
GCTGCATCAAGCACGACCACAATGG
LOC_Os10g20960
OsAffx.20488.2.S1_at--1044--3831Chr10:10282349..10282373 (25 bp)
CTGCATCAAGCACGACCACAATGGC
LOC_Os10g20960
OsAffx.20488.2.S1_at--1069--9051Chr10:10282350..10282374 (25 bp)
TGCATCAAGCACGACCACAATGGCA
LOC_Os10g20960
OsAffx.20488.2.S1_at--323--4971Chr10:10282351..10282375 (25 bp)
GCATCAAGCACGACCACAATGGCAG
LOC_Os10g20960
OsAffx.20488.2.S1_at--833--3551Chr10:10282352..10282376 (25 bp)
CATCAAGCACGACCACAATGGCAGT
LOC_Os10g20960
OsAffx.20488.2.S1_at--567--371Chr10:10282353..10282377 (25 bp)
ATCAAGCACGACCACAATGGCAGTG
LOC_Os10g20960
OsAffx.20488.2.S1_at--1147--9711Chr10:10282354..10282378 (25 bp)
TCAAGCACGACCACAATGGCAGTGG
LOC_Os10g20960
OsAffx.20488.2.S1_at--811--3231Chr10:10282355..10282379 (25 bp)
CAAGCACGACCACAATGGCAGTGGT
LOC_Os10g20960
Target Sequence 
GTTGCTGCATCAAGCACGACCACAATGGCAGTGGT

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.20488.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis