Browse Element(s) Details


OsAffx.16946.1.S1_at

Description tigr:9636.m01074
TID=OsAffx.16946.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=hypothetical protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g1105010/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g112002/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g118102/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g099901/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g10980OsAffx.5784.1.S1_at11/118+6469261..6470496hypothetical protein
LOC_Os08g10980OsAffx.3813.1.S1_at1/118+6469261..6470496hypothetical protein
LOC_Os08g10990NANA8+6471113..6474013retrotransposon protein, putative, unclassified
LOC_Os08g11000Os.53142.1.S1_at2/118+6474510..6476468retrotransposon protein, putative, unclassified
LOC_Os08g11000OsAffx.199.1.S1_at1/118+6474510..6476468retrotransposon protein, putative, unclassified
LOC_Os08g11010Os.53142.1.S1_at2/118+6481581..6484393retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g11020NANA8+6485562..6487053retrotransposon protein, putative, unclassified
LOC_Os08g11030NANA8+6488679..6489621hypothetical protein
LOC_Os08g11040NANA8+6490304..6493759hypothetical protein
LOC_Os08g11050OsAffx.16946.1.S1_at10/118+6494374..6498560retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g11050OsAffx.30350.1.S1_at1/118+6494374..6498560retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g11060NANA8+6501892..6502656retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g11070NANA8+6504572..6505684retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g11080Os.53142.1.S1_at3/118+6508275..6511075retrotransposon protein, putative, unclassified
LOC_Os08g11080Os.23706.1.A1_x_at1/118+6508275..6511075retrotransposon protein, putative, unclassified
LOC_Os08g11090Os.46314.2.S1_x_at1/118+6515940..6517394retrotransposon protein, putative, unclassified
LOC_Os08g11090OsAffx.32036.1.S1_at1/118+6515940..6517394retrotransposon protein, putative, unclassified
LOC_Os08g11100Os.24942.4.A1_x_at4/118+6522656..6523063hypothetical protein
LOC_Os08g11100Os.24942.4.A1_at4/118+6522656..6523063hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.16946.1.S1_at--212--1091Chr08:6498534..6498644 (25 bp)
AGTGGCGCGGCAGGTCGAAGAAGTT
NONE
OsAffx.16946.1.S1_at--473--4111Chr08:6498519..6498543 (25 bp)
CGAAGAAGTTCGATGCCTAGCAAGC
LOC_Os08g11050
OsAffx.16946.1.S1_at--724--5371Chr08:6498518..6498542 (25 bp)
GAAGAAGTTCGATGCCTAGCAAGCA
LOC_Os08g11050
OsAffx.16946.1.S1_at--516--4471Chr08:6498479..6498503 (25 bp)
GCCTGTTCGCAAGAAAGTCCACAAA
LOC_Os08g11050
OsAffx.16946.1.S1_at--5--10631Chr08:6498474..6498498 (25 bp)
TTCGCAAGAAAGTCCACAAACGCTC
LOC_Os08g11050
OsAffx.16946.1.S1_at--129--1431Chr08:6498468..6498492 (25 bp)
AGAAAGTCCACAAACGCTCTTCGCA
LOC_Os08g11050
OsAffx.16946.1.S1_at--784--5591Chr08:6498426..6498450 (25 bp)
GAAATATCAGGCAGCGTGGCAACAA
LOC_Os08g11050
OsAffx.16946.1.S1_at--1078--231Chr08:6498423..6498447 (25 bp)
ATATCAGGCAGCGTGGCAACAATCA
LOC_Os08g11050
OsAffx.16946.1.S1_at--519--411Chr08:6498421..6498445 (25 bp)
ATCAGGCAGCGTGGCAACAATCAAG
LOC_Os08g11050
OsAffx.16946.1.S1_at--961--8254Chr12:5289855..5290155 (25 bp)
GGCAGCGTGGCAACAATCAAGACCC
LOC_Os12g09990
OsAffx.16946.1.S1_at--933--1633Chr08:6923684..6923708 (25 bp)
AGCGTGGCAACAATCAAGACCCAAG
LOC_Os08g11810
Target Sequence 
AGTGGCGCGGCAGGTCGAAGAAGTTCGATGCCTAGCAAGCAAGCAACCATCAGCAGCCTGTTCGCAAGAAAGTCCACAAA
CGCTCTTCGCACACCACCGAGCAATGCCGAAATATCAGGCAGCGTGGCAACAATCAAGACCCAAG

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.16946.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis