Browse Element(s) Details


OsAffx.485.1.S1_at

Description gb:XM_354392.1
DB_XREF= gi:35190983
TID=OsAffx.485.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group).
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g063501/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g400101/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g210601/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g06320OsAffx.17574.1.S1_at10/119+2964732..2967345retrotransposon, putative, centromere-specific
LOC_Os09g06320OsAffx.19675.1.S1_at3/119+2964732..2967345retrotransposon, putative, centromere-specific
LOC_Os09g06320OsAffx.19675.1.S1_x_at3/119+2964732..2967345retrotransposon, putative, centromere-specific
LOC_Os09g06330NANA9+2969963..2972205hypothetical protein
LOC_Os09g06340OsAffx.17573.1.S1_at11/119+2975750..2976142hypothetical protein
LOC_Os09g06350OsAffx.19542.3.S1_x_at5/119+2982082..2987613retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g06350OsAffx.21754.1.S1_x_at2/119+2982082..2987613retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g06350OsAffx.485.1.S1_at1/119+2982082..2987613retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g06360NANA9+2991210..2992477hypothetical protein
LOC_Os09g06370NANA9+2993251..2995152Transposable element protein, putative, Retrotrans_gag
LOC_Os09g06380Os.24942.4.A1_x_at6/119+3001399..3002122hypothetical protein
LOC_Os09g06380Os.24942.4.A1_at3/119+3001399..3002122hypothetical protein
LOC_Os09g06390OsAffx.25367.1.S1_at1/119+3009380..3014065retrotransposon, putative, centromere-specific
LOC_Os09g06390OsAffx.20244.1.S1_at1/119+3009380..3014065retrotransposon, putative, centromere-specific

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.485.1.S1_at--714--38110Chr07:13107644..13107668 (25 bp)
CTCCTCTGTACTGCGATCGGGAGAG
NONE
OsAffx.485.1.S1_at--816--4052Chr07:13107692..13107716 (25 bp)
CGATGTCCTACACCGGGAGAAGGCA
NONE
OsAffx.485.1.S1_at--256--711Chr07:13107723..13107747 (25 bp)
ATGTTTTTGGGAAGTGCTTTACACG
NONE
OsAffx.485.1.S1_at--545--8631Chr07:13107730..13107754 (25 bp)
TGGGAAGTGCTTTACACGACCGCTC
NONE
OsAffx.485.1.S1_at--270--10331Chr07:13107740..13107764 (25 bp)
TTTACACGACCGCTCCTTGTTCATC
NONE
OsAffx.485.1.S1_at--753--9651Chr07:13107790..13107814 (25 bp)
TCACGGGTTGCGCACCATCGTTAAC
NONE
OsAffx.485.1.S1_at--258--9151Chr07:13107798..13107822 (25 bp)
TGCGCACCATCGTTAACGCACGGTA
NONE
OsAffx.485.1.S1_at--110--511Chr07:13107806..13107830 (25 bp)
ATCGTTAACGCACGGTACCACGAGT
NONE
OsAffx.485.1.S1_at--219--10491Chr07:13107810..13107834 (25 bp)
TTAACGCACGGTACCACGAGTCCTT
NONE
OsAffx.485.1.S1_at--1081--7831Chr07:13107819..13107843 (25 bp)
GGTACCACGAGTCCTTCCCGCTGAG
NONE
OsAffx.485.1.S1_at--646--9292Chr07:13107834..13107858 (25 bp)
TCCCGCTGAGCAGCCGGTTTTGCAA
NONE
Target Sequence 
CTCCTCTGTACTGCGATCGGGAGAGCAGGTCTCCGGAACCTTCGCCTTCGATGTCCTACACCGGGAGAAGGCAGCAATAA
TGTTTTTGGGAAGTGCTTTACACGACCGCTCCTTGTTCATCCACAACGGCTCCTCTTCCTCTTCGCTCACGGGTTGCGCA
CCATCGTTAACGCACGGTACCACGAGTCCTTCCCGCTGAGCAGCCGGTTTTGCAA

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.485.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis