Browse Element(s) Details


OsAffx.8551.1.S1_at

Description gb:NM_194641.1
DB_XREF= gi:37530641
TID=OsAffx.8551.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative copia-type pol polyprotein (OSJNAa0079B05.14), mRNA.
PROD=putative copia-type pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0311011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g336101/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g03070OsAffx.32166.1218.S1_x_at3/1110+1262999..1274485retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03070OsAffx.1349.1.S1_x_at1/1110+1262999..1274485retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03070OsAffx.30280.1.S1_x_at1/1110+1262999..1274485retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03080OsAffx.20783.1.S1_at11/1110+1276774..1278273hypothetical protein
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

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8551.1.S1_at--907--3931Chr10:1296267..1296291 (25 bp)
CGGCTACCTGAGTCGGTTCATGGAG
LOC_Os10g03110
OsAffx.8551.1.S1_at--691--6151Chr10:1296201..1296225 (25 bp)
GAGGTACATCGGCAGAACGCGACAC
LOC_Os10g03110
OsAffx.8551.1.S1_at--998--5631Chr10:1296181..1296205 (25 bp)
GACACCATGGTGTTCATTACGCCAG
LOC_Os10g03110
OsAffx.8551.1.S1_at--830--7251Chr10:1296051..1296075 (25 bp)
GTCCTGTCTCTTGGCAATCAGCGAA
LOC_Os10g03110
OsAffx.8551.1.S1_at--539--8591Chr10:1295966..1296042 (25 bp)
TGGTCACACTATCATCTTAGCTCGG
LOC_Os10g03110
OsAffx.8551.1.S1_at--514--5831Chr10:1295932..1295956 (25 bp)
GACCTGCTTGACTCGGAGCCTGGAG
LOC_Os10g03110
OsAffx.8551.1.S1_at--130--1272Chr08:20852547..20852566 (20 bp)
AGAATCCCGTTTTCCATGACCGGAG
NONE
OsAffx.8551.1.S1_at--388--5831Chr10:1295845..1295869 (25 bp)
GACCGGAGCAAGCATATCGACACGA
LOC_Os10g03110
OsAffx.8551.1.S1_at--323--1873Chr08:20852584..20852604 (21 bp)
ACGAGATACCATTTCATCCGGGAGT
NONE
OsAffx.8551.1.S1_at--768--3391Chr10:1295752..1295776 (25 bp)
CAGCTGGCGGCCGTACTGATGAAGC
LOC_Os10g03110
OsAffx.8551.1.S1_at--730--4491Chr10:1295721..1295745 (25 bp)
GCCGTGTTCCATTCCAGGAGTTATG
LOC_Os10g03110
Target Sequence 
CGGCTACCTGAGTCGGTTCATGGAGGAACCACATGAGGATCATCAAGCGGCGGTGAAGCATGTGCTGAGGTACATCGGCA
GAACGCGACACCATGGTGTTCATTACGCCAGGGGGAAAGGAGGATGGCTGGAGCTGCATGGCTTCAGCGACAGCGACATG
GCCGGCGATCTGGACACGCGCCGGAGCACGAGCGGCGTTCTCCTTCCACGACTCCAGTCCTGTCTCTTGGCAATCAGCGA
AACAGAAGGTGGTCACACTATCATCTTAGCTCGGCTCCTGAGCGACCTGCTTGACTCGGAGCCTGGAGCACCGGAGATCA
TGGTGGACAATAAGTCTGCCATAGCAATCACCAAGAATCCCGTTTTCCATGACCGGAGCAAGCATATCGACACGAGATAC
CATTTCATCCGGGAGTGCGTGGAGAACGGGAAGATCGTCATCAACTACATTCGTATAGAGGAGCAGCTGGCGGCCGTACT
GATGAAGCCGCTCGGCCGTGTTCCATTCCAGGAGTTATG

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.8551.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis