Browse Element(s) Details


OsAffx.278.1.S1_at

Description gb:NM_195663.1
DB_XREF= gi:37532685
TID=OsAffx.278.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNAa0053D03.15), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1741011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g261002/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g245702/11retrotransposon protein, putative, unclassified
LOC_Os06g262601/11retrotransposon protein, putative, unclassified
LOC_Os01g331361/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g223101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g275701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g298541/11NB-ARC domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g17360NANA10+8413909..8420575retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17370OsAffx.22896.1.S1_x_at1/1110+8421738..8426407retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17380OsAffx.30435.1.S1_at11/1110+8427941..8429011hypothetical protein
LOC_Os10g17390OsAffx.30436.1.S1_at11/1110+8430995..8433005hypothetical protein
LOC_Os10g17400NANA10+8437280..8442540retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17410OsAffx.278.1.S1_at11/1110+8443823..8447820retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17430OsAffx.8303.1.S1_at11/1110+8449734..8450321retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17440OsAffx.20549.1.S1_at11/1110+8451569..8452468retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g17454Os.7927.2.S1_x_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.7927.1.S1_a_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.7927.1.S1_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.52390.1.S1_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454OsAffx.30437.1.S1_x_at10/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454OsAffx.30437.1.S1_at3/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.54271.1.S1_at1/1110+8455650..8465123RNA recognition motif family protein, expressed

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0006952biological_processdefense response
GO:0009626biological_processhypersensitive response
GO:0019897cellular_componentextrinsic to plasma membrane
GO:0000166molecular_functionnucleotide binding
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.278.1.S1_at--1028--8232Chr08:18219852..18219871 (20 bp)
GGCACTTTCTGCCATCTCAGAATGT
LOC_Os08g29854
OsAffx.278.1.S1_at--173--2351Chr10:8444245..8444269 (25 bp)
AAAGCTTTTGACCACGCATCAGATC
LOC_Os10g17410
OsAffx.278.1.S1_at--1005--2771Chr10:8444217..8444241 (25 bp)
AAGAGACTTTCAACAACCTTCGCAC
LOC_Os10g17410
OsAffx.278.1.S1_at--820--2631Chr10:8444203..8444227 (25 bp)
AACCTTCGCACTGCTGGCATGAAAC
LOC_Os10g17410
OsAffx.278.1.S1_at--856--3971Chr10:8444162..8444186 (25 bp)
CGTTTTCGGTGTTCATGCCGGTAAG
LOC_Os10g17410
OsAffx.278.1.S1_at--407--10752Chr10:8444134..8444158 (25 bp)
TTGGGATTCCTTGTGTCCGAATGGG
LOC_Os10g17410
OsAffx.278.1.S1_at--327--5438Chr09:13479329..13479353 (25 bp)
GAAGCCACCATCGAGCGTACGACAA
LOC_Os09g22310
OsAffx.278.1.S1_at--352--7133Chr10:8443973..8443997 (25 bp)
GTCATTTTTCAAGACCCTTCGAGGG
LOC_Os10g17410
OsAffx.278.1.S1_at--1036--8151Chr10:8443945..8443969 (25 bp)
GGAAAATTCAGTTTGACGCCCGAAT
LOC_Os10g17410
OsAffx.278.1.S1_at--550--4131Chr10:8443929..8443953 (25 bp)
CGCCCGAATGCGAAACAACCTTTGA
LOC_Os10g17410
OsAffx.278.1.S1_at--221--10271Chr10:8443909..8443933 (25 bp)
TTTGATGAGCTCAAGCAGTACCTCC
LOC_Os10g17410
Target Sequence 
GGCACTTTCTGCCATCTCAGAATGTCTTTCGGCTTAAGAAATGCAGGGGTTACGTTCACCAGGTTGGTGTACAAAGTCTT
GGGGTTGCAGCTGGGGCGAAATGTCGAAGCCTATGTTGATGAAATTGTTGTAAAAAGCTGCAAAGCTTTTGACCACGCAT
CAGATCTGCAAGAGACTTTCAACAACCTTCGCACTGCTGGCATGAAACTAAACCCAGAGAAATGCGTTTTCGGTGTTCAT
GCCGGTAAGTTGTTGGGATTCCTTGTGTCCGAATGGGGGATCGAAGCGAATCCCGAGAAAATCGATGCCATTCAGCAAAT
GAAGCCACCATCGAGCGTACGACAAGTACAAAAGCTCGCGGGGCGAATTGCGGCACTAAGTCGATTCTTGTCAAAAGCAG
CCGAAAGGGGCTTGTCATTTTTCAAGACCCTTCGAGGGGCAGGAAAATTCAGTTTGACGCCCGAATGCGAAACAACCTTT
GATGAGCTCAAGCAGTACCTCC

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.278.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis