Browse Element(s) Details


OsAffx.8880.1.S1_at

Description gb:NM_193925.1
DB_XREF= gi:34914933
GEN=B1096D03.34
TID=OsAffx.8880.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) B1096D03.34 (B1096D03.34), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g2849011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g250801/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g333241/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g28440NANA1+16256129..16259212transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os01g28450Os.418.1.S1_at11/111+16261359..16262183Pathogenesis-related protein PRB1-3 precursor, putative, expressed
LOC_Os01g28460Os.24942.4.A1_x_at6/111+16272370..16273964hypothetical protein
LOC_Os01g28460Os.24942.4.A1_at3/111+16272370..16273964hypothetical protein
LOC_Os01g28474Os.31392.1.S1_at11/111+16275642..16279873Transferase family protein, expressed
LOC_Os01g28490OsAffx.8880.1.S1_at11/111+16282644..16283943retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g28500Os.13965.1.S1_at11/111+16285609..16286363Pathogenesis-related protein PRMS precursor, putative, expressed
LOC_Os01g28510Os.32238.1.S1_at11/111+16292971..16294510expressed protein
LOC_Os01g28520OsAffx.21119.2.S1_at11/111+16295213..16296418F-box domain containing protein
LOC_Os01g28520OsAffx.21119.1.S1_s_at11/111+16295213..16296418F-box domain containing protein
LOC_Os01g28530Os.45173.1.S1_x_at3/111+16297336..16299567retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g28540Os.27627.1.S1_at10/111+16302192..16307413expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8880.1.S1_at--304--3711Chr01:16283170..16283194 (25 bp)
CTAGCTGACAATATATTGGACGTTT
LOC_Os01g28490
OsAffx.8880.1.S1_at--216--9451Chr01:16283246..16283266 (21 bp)
TCGGAGTTTCCGATGCTGGCAAGTT
LOC_Os01g28490
OsAffx.8880.1.S1_at--1036--6331Chr01:16283257..16283488 (25 bp)
GATGCTGGCAAGTTCGGTGTTACTG
LOC_Os01g28490
OsAffx.8880.1.S1_at--968--8213Chr12:14403535..14403555 (21 bp)
GGCAAGTTCGGTGTTACTGATCTCA
LOC_Os12g25080
OsAffx.8880.1.S1_at--96--5611Chr01:16283533..16283557 (25 bp)
GACAACCCCGATAAAAAGATCAAGA
LOC_Os01g28490
OsAffx.8880.1.S1_at--230--9771Chr01:16283595..16283619 (25 bp)
TAATGCACCCCACAACAATAACAAG
LOC_Os01g28490
OsAffx.8880.1.S1_at--66--2831Chr01:16283621..16283645 (25 bp)
AAGTCAAACGTGATGTCAAACTAAA
LOC_Os01g28490
OsAffx.8880.1.S1_at--895--3191Chr01:16283727..16283751 (25 bp)
CAAGGATTGTCCTGATCACAACGAC
LOC_Os01g28490
OsAffx.8880.1.S1_at--534--6451Chr01:16283740..16283764 (25 bp)
GATCACAACGACAAAAAGTCTGCAA
LOC_Os01g28490
OsAffx.8880.1.S1_at--572--7731Chr01:16283849..16283873 (25 bp)
GGTGGGTTGATACTTTTCGACATTT
LOC_Os01g28490
OsAffx.8880.1.S1_at--1109--10472Chr01:16283864..16283888 (25 bp)
TTCGACATTTTAGGTCACGACTACG
LOC_Os01g28490
Target Sequence 
CTAGCTGACAATATATTGGACGTTTACATGCACATGCCTTCAGCGAAGGATATGTGGGATGCAGTTGAGGCCAAGTTCGG
AGTTTCCGATGCTGGCAAGTTCGGTGTTACTGATCTCATTGGCTCTTTGGGTGTTGAGGAGAAGGTGAGGGCAAAGGACA
ACCCCGATAAAAAGATCAAGAGAGGTTCTAGCGCTAACTTGGTGCAAAAGAAGAACCCTAATGCACCCCACAACAATAAC
AAGAAAGTCAAACGTGATGTCAAACTAAAGGCAACAACCAATTTTAAGAAGAAATGCAAGGGAAAGGCGAAGGGCAACTG
CTTTGTGTGCGGTAAGTCTGGGCATTGGGCCAAGGATTGTCCTGATCACAACGACAAAAAGTCTGCAAACATGGTCATTA
GCGAGGGCGAAGGAACATCGGGGTACGGTAAATTTTTACCTACAGTTCTCTCTATTTTCCACTCACCTGATTGGTGGGTT
GATACTTTTCGACATTTTAGGTCACGACTACG

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.8880.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis