Browse Element(s) Details


OsAffx.8549.1.S1_at

Description gb:NM_194643.1
DB_XREF= gi:37530645
TID=OsAffx.8549.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNAa0079B05.16), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0313011/11transposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g03090NANA10+1285137..1285511expressed protein
LOC_Os10g03100Os.46475.1.S1_at11/1110+1292562..1295093Leucine Rich Repeat family protein, expressed
LOC_Os10g03110OsAffx.8551.1.S1_at11/1110+1295672..1300612retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03120OsAffx.8550.1.S1_at11/1110+1302208..1304668retrotransposon protein, putative, unclassified
LOC_Os10g03130OsAffx.8549.1.S1_at11/1110+1306156..1308012transposon protein, putative, unclassified
LOC_Os10g03140OsAffx.422.1.S1_at11/1110+1309007..1309645retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g03150Os.24831.3.S1_s_at10/1110+1314732..1317041retrotransposon protein, putative, unclassified
LOC_Os10g03150Os.24831.1.S1_x_at8/1110+1314732..1317041retrotransposon protein, putative, unclassified
LOC_Os10g03150Os.24831.3.S1_x_at6/1110+1314732..1317041retrotransposon protein, putative, unclassified
LOC_Os10g03150Os.24831.4.S1_x_at2/1110+1314732..1317041retrotransposon protein, putative, unclassified
LOC_Os10g03150Os.55127.1.S1_at1/1110+1314732..1317041retrotransposon protein, putative, unclassified
LOC_Os10g03160OsAffx.8548.1.S1_at11/1110+1321050..1322111transposon protein, putative, unclassified
LOC_Os10g03170OsAffx.15648.1.S1_at1/1110+1322987..1325433hypothetical protein
LOC_Os10g03180NANA10+1325907..1326950hypothetical protein
LOC_Os10g03190OsAffx.30891.1.S1_x_at2/1110+1331909..1333198hypothetical protein
LOC_Os10g03190OsAffx.7527.1.S1_x_at1/1110+1331909..1333198hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8549.1.S1_at--1102--5771Chr10:1307079..1307103 (25 bp)
GACGACTGGCGAATCAAGCTTATCA
LOC_Os10g03130
OsAffx.8549.1.S1_at--1050--10391Chr10:1307051..1307075 (25 bp)
TTTTGAGCACCGATGAGCTACCCGA
LOC_Os10g03130
OsAffx.8549.1.S1_at--974--5011Chr10:1307013..1307037 (25 bp)
GCAGAAAAGATATCCCGCCAGGCCA
LOC_Os10g03130
OsAffx.8549.1.S1_at--674--4171Chr10:1306998..1307022 (25 bp)
CGCCAGGCCAGAATCTATTGTTTGA
LOC_Os10g03130
OsAffx.8549.1.S1_at--101--2451Chr10:1306956..1306980 (25 bp)
AAAATGGGCCCGAACGAGATCCTCA
LOC_Os10g03130
OsAffx.8549.1.S1_at--383--5931Chr10:1306941..1306965 (25 bp)
GAGATCCTCAAATACGTTTCGTCCG
LOC_Os10g03130
OsAffx.8549.1.S1_at--678--3391Chr10:1306861..1306885 (25 bp)
CAGCGGGCGTACTATGGTTGGAAAA
LOC_Os10g03130
OsAffx.8549.1.S1_at--433--9071Chr10:1306795..1306819 (25 bp)
TGCTTGCGACATGGTGCAACGATAT
LOC_Os10g03130
OsAffx.8549.1.S1_at--979--251Chr10:1306774..1306798 (25 bp)
ATATGAAGCCTGTCAGTTCTTCAGC
LOC_Os10g03130
OsAffx.8549.1.S1_at--697--2391Chr10:1306749..1306773 (25 bp)
AAACACACGAAGTTGCCAACCCAAG
LOC_Os10g03130
OsAffx.8549.1.S1_at--603--8991Chr10:1306597..1306621 (25 bp)
TGAAGCAGAGCCCACACGAGAAATT
LOC_Os10g03130
Target Sequence 
GACGACTGGCGAATCAAGCTTATCAAATTTTTGAGCACCGATGAGCTACCCGAGGACGACGTTGAGGCAGAAAAGATATC
CCGCCAGGCCAGAATCTATTGTTTGATCGACAAAGATCTATATAAAATGGGCCCGAACGAGATCCTCAAATACGTTTCGT
CCGACGACGGCAAAGCACTGCTCCTCGACATCCATGAAGGTATATGCGGGTCACACGCCAGCGGGCGTACTATGGTTGGA
AAAGCTTTTCGACAAGTGTTTTTCTGGCCGACCGCCCTCAAAGATGCTTGCGACATGGTGCAACGATATGAAGCCTGTCA
GTTCTTCAGCAAACACACGAAGTTGCCAACCCAAGCACTCCAGACCATCCCTCTCACTTGGCCATTGTCATGCTGGGGGC
TCGACATACTCGGACCGTTCCCACGAGGACTGGGCGGCTACAAATTCTTGTTCGTGGCAAACAACAAATTCACGAAGTGG
ATTGAAGCAGAGCCCACACGAGAAATT

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.8549.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis