Browse Element(s) Details


OsAffx.21171.1.S1_at

Description gb:NM_193684.1
DB_XREF= gi:34914451
GEN=OJ1005_B10.27
TID=OsAffx.21171.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putatitive retrotransposon Cinful-1 (OJ1005_B10.27), mRNA.
PROD=putatitive retrotransposon Cinful-1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g3404011/11retrotransposon protein, putative, unclassified
LOC_Os01g478601/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g34000OsAffx.21172.1.S1_at10/111+19037627..19038616hypothetical protein
LOC_Os01g34010Os.36245.2.S1_at10/111+19046792..19049950expressed protein
LOC_Os01g34010Os.52455.1.S1_at1/111+19046792..19049950expressed protein
LOC_Os01g34020NANA1+19054772..19054993transposon protein, putative, unclassified
LOC_Os01g34030OsAffx.22711.3.S1_x_at1/111+19058064..19062002retrotransposon protein, putative, unclassified
LOC_Os01g34030OsAffx.20380.1.S1_x_at1/111+19058064..19062002retrotransposon protein, putative, unclassified
LOC_Os01g34030OsAffx.22711.1.S1_x_at1/111+19058064..19062002retrotransposon protein, putative, unclassified
LOC_Os01g34030OsAffx.20380.2.S1_at1/111+19058064..19062002retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.21171.1.S1_at11/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.21171.3.S1_x_at4/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.21171.4.S1_x_at3/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.20729.1.S1_x_at2/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.21171.4.S1_at1/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34040OsAffx.21171.5.S1_x_at1/111+19062537..19068571retrotransposon protein, putative, unclassified
LOC_Os01g34050Os.57403.1.S1_x_at11/111+19076131..19077327expressed protein
LOC_Os01g34050Os.57403.1.S1_at11/111+19076131..19077327expressed protein
LOC_Os01g34050OsAffx.21170.1.S1_at1/111+19076131..19077327expressed protein
LOC_Os01g34060Os.15338.1.S1_a_at11/111+19082123..19083747myb-like DNA-binding domain, SHAQKYF class family protein, expressed
LOC_Os01g34080Os.9508.1.S1_at11/111+19090117..19101323Armadillo/beta-catenin-like repeat family protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.21171.1.S1_at--658--3791Chr01:19062994..19063018 (25 bp)
CTCGCATCGCGCTGTACAATGAGGC
LOC_Os01g34040
OsAffx.21171.1.S1_at--975--7031Chr01:19062981..19063005 (25 bp)
GTACAATGAGGCCACCCAGGATGAC
LOC_Os01g34040
OsAffx.21171.1.S1_at--936--4331Chr01:19062966..19062990 (25 bp)
CCAGGATGACCTTCGCCACGACAAT
LOC_Os01g34040
OsAffx.21171.1.S1_at--284--4411Chr01:19062952..19062976 (25 bp)
GCCACGACAATCTCGATTATCTCGA
LOC_Os01g34040
OsAffx.21171.1.S1_at--252--6452Chr01:27726435..27726459 (25 bp)
GATCACTGCAAATTGGCGACCTCGT
LOC_Os01g47860
OsAffx.21171.1.S1_at--800--531Chr01:19062804..19062828 (25 bp)
ATCGCGCCTGGAGCTGAGCAAGCTC
LOC_Os01g34040
OsAffx.21171.1.S1_at--785--3451Chr01:19062733..19062757 (25 bp)
CAGGCTCCGTTCAGTTAACCACGGA
LOC_Os01g34040
OsAffx.21171.1.S1_at--933--9391Chr01:19062663..19062687 (25 bp)
TCGTTTCTATCCGTGGCATCGAGAG
LOC_Os01g34040
OsAffx.21171.1.S1_at--227--3531Chr01:19062647..19062671 (25 bp)
CATCGAGAGTTTTTGCTTTCCAGGA
LOC_Os01g34040
OsAffx.21171.1.S1_at--789--6818Chr10:12878729..12878752 (24 bp)
GTTTTTGCTTTCCAGGAGCTCGGGC
NONE
OsAffx.21171.1.S1_at--994--2611Chr01:19062602..19062626 (25 bp)
AACCCCTCAGTTTGTGCAGGCTTGG
LOC_Os01g34040
Target Sequence 
CTCGCATCGCGCTGTACAATGAGGCCACCCAGGATGACCTTCGCCACGACAATCTCGATTATCTCGAAGAACGGAGAAGG
CGTGCGGCCCTACGTGCCGCGCGCTACCAGCAAAGCCTGCGACGCTACCATCAGCGCCACGTCCGGGCCCGATCACTGCA
AATTGGCGACCTCGTCCTACGCCGCGTCCAATCGCGCCTGGAGCTGAGCAAGCTCTCGCCAATGTGGGAAGGGCCATACA
AAGTGATCGGCGTGCCCCGGCCAGGCTCCGTTCAGTTAACCACGGAGGACAGCACAGAGTTGCCTAACCCCTGGAATATC
GAACACCTCCGTCGTTTCTATCCGTGGCATCGAGAGTTTTTGCTTTCCAGGAGCTCGGGCCAACCCCCGCACAACCCCTC
AGTTTGTGCAGGCTTGG

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.21171.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis