Browse Element(s) Details


OsAffx.5954.5.S1_x_at

Description gb:NM_194820.1
DB_XREF= gi:37530999
TID=OsAffx.5954.5
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative polyprotein (OSJNBa0034A02.18), mRNA.
PROD=putative polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0538011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g072308/11retrotransposon protein, putative, unclassified
LOC_Os07g112407/11retrotransposon protein, putative, unclassified
LOC_Os07g188907/11retrotransposon protein, putative, unclassified
LOC_Os02g397807/11retrotransposon protein, putative, unclassified
LOC_Os09g080206/11retrotransposon protein, putative, unclassified
LOC_Os08g397606/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g014306/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g334606/11retrotransposon protein, putative, unclassified
LOC_Os08g276105/11retrotransposon protein, putative, unclassified
LOC_Os09g104105/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g033605/11retrotransposon protein, putative, unclassified
LOC_Os08g296905/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g010204/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g333004/11retrotransposon protein, putative, unclassified
LOC_Os04g124204/11retrotransposon protein, putative, unclassified
LOC_Os03g136704/11retrotransposon protein, putative, unclassified
LOC_Os04g187704/11retrotransposon protein, putative, unclassified
LOC_Os01g161604/11retrotransposon protein, putative, unclassified
LOC_Os04g173204/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g087684/11retrotransposon protein, putative, unclassified
LOC_Os06g391903/11retrotransposon protein, putative, unclassified
LOC_Os03g335303/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g491203/11retrotransposon protein, putative, unclassified
LOC_Os03g357883/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g346702/11retrotransposon protein, putative, unclassified
LOC_Os07g055402/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g259902/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g224302/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g418302/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g196202/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g217802/11retrotransposon protein, putative, unclassified
LOC_Os03g366002/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g05320OsAffx.31869.5.S1_x_at11/1110+2611781..2612578retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05320OsAffx.31869.4.S1_x_at1/1110+2611781..2612578retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05329NANA10+2613607..2613990hypothetical protein
LOC_Os10g05340Os.46557.2.S1_x_at11/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05340Os.46557.1.S1_x_at4/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05340OsAffx.21157.1.S1_x_at3/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05360NANA10+2627496..2629346hypothetical protein
LOC_Os10g05370OsAffx.30294.1.S1_at11/1110+2631640..2632893hypothetical protein
LOC_Os10g05380OsAffx.5954.5.S1_x_at11/1110+2634031..2638573retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g05380OsAffx.5954.1.S1_x_at3/1110+2634031..2638573retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g05380OsAffx.5954.3.S1_x_at3/1110+2634031..2638573retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g05390OsAffx.2425.1.S1_at1/1110+2641495..2642555hypothetical protein
LOC_Os10g05400OsAffx.30295.1.S1_at11/1110+2646459..2648411Protein kinase domain containing protein
LOC_Os10g05410OsAffx.20752.1.S1_at11/1110+2651213..2653297hypothetical protein
LOC_Os10g05420NANA10+2658287..2659388hypothetical protein
LOC_Os10g05430NANA10+2660547..2662514hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.5954.5.S1_x_at--879--1195Chr10:2634790..2634814 (25 bp)
AGTATCCACTCGTTCTCGTATTACA
LOC_Os10g05380
OsAffx.5954.5.S1_x_at--64--59324Chr09:5690475..5690498 (24 bp)
GAGCATTACTCGTTTGTGTCTTCTA
LOC_Os09g10410
OsAffx.5954.5.S1_x_at--985--53920Chr12:15091837..15091861 (25 bp)
GAAGCTCTTAATGATCCGGATTGGG
LOC_Os12g25990
OsAffx.5954.5.S1_x_at--382--1913Chr09:5690572..5690821 (25 bp)
ATTTCACCCGGAATGAACTATATCA
LOC_Os09g10410
OsAffx.5954.5.S1_x_at--43--8319Chr09:1630349..1630373 (25 bp)
ATGGATGTCAAAAGCGCCTTCCTCA
LOC_Os09g03360
OsAffx.5954.5.S1_x_at--906--96919Chr12:15092162..15092186 (25 bp)
TCAACGGGCCTATCAACGAGTTGGT
LOC_Os12g25990
OsAffx.5954.5.S1_x_at--274--68723Chr09:5690868..5690892 (25 bp)
GTATACGTGGAGCAACCACCGGGCT
LOC_Os09g10410
OsAffx.5954.5.S1_x_at--234--3379Chr09:5690884..5690908 (25 bp)
CACCGGGCTTCGAGGATCCAAAATA
LOC_Os09g10410
OsAffx.5954.5.S1_x_at--55--3072Chr10:2634326..2634350 (25 bp)
AATATCCCAACCACGTATACAAGCT
LOC_Os10g05380
OsAffx.5954.5.S1_x_at--773--10171Chr10:2634311..2634335 (25 bp)
TATACAAGCTCCACAAGGCACTCTA
LOC_Os10g05380
OsAffx.5954.5.S1_x_at--1046--61118Chr09:5690976..5691000 (25 bp)
GAGTGTCTTCGCAATTTTCTTGTGA
LOC_Os09g10410
Target Sequence 
AGTATCCACTCGTTCTCGTATTACAAATTTTTGTGAGCATTACTCGTTTGTGTCTTCTATTGAACCTCTAAAGGTGGAAG
AAGCTCTTAATGATCCGGATTGGGTGATGGCGATGCAAGAGGAGTTGAACAATTTCACCCGGAATGAACTATATCAAATG
GATGTCAAAAGCGCCTTCCTCAACGGGCCTATCAACGAGTTGGTATACGTGGAGCAACCACCGGGCTTCGAGGATCCAAA
ATATCCCAACCACGTATACAAGCTCCACAAGGCACTCTACGGGCTTAAGCAAGCCCCTAGAGCTTGGTATGAGTGTCTTC
GCAATTTTCTTGTGA

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.5954.5.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis