Browse Element(s) Details


OsAffx.8548.1.S1_at

Description gb:NM_194646.1
DB_XREF= gi:37530651
TID=OsAffx.8548.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNAa0079B05.19), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0316011/11transposon protein, putative, unclassified
LOC_Os02g240701/11transposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
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
LOC_Os10g03200NANA10+1336788..1338100hypothetical protein
LOC_Os10g03210OsAffx.30774.1.S1_s_at11/1110+1339586..1340655hypothetical protein
LOC_Os10g03220OsAffx.6563.1.S1_at11/1110+1341090..1343329transposase, putative, expressed
LOC_Os10g03230OsAffx.30251.1.S1_at11/1110+1343664..1344464hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8548.1.S1_at--1089--5371Chr10:1321565..1321589 (25 bp)
GAAGAATTTCTCCACGTCTTCTCTA
LOC_Os10g03160
OsAffx.8548.1.S1_at--877--2132Chr02:13939356..13939375 (20 bp)
ACAGTTCTCTATGCTGCTGGTGCCA
LOC_Os02g24070
OsAffx.8548.1.S1_at--336--1891Chr10:1321516..1321540 (25 bp)
ACGATCACGCGTTGGCAAACTATTT
LOC_Os10g03160
OsAffx.8548.1.S1_at--54--3291Chr10:1321501..1321525 (25 bp)
CAAACTATTTGCCTGCCGCATTAAA
LOC_Os10g03160
OsAffx.8548.1.S1_at--523--6411Chr10:1321474..1321498 (25 bp)
GATCTGCTCGATCGTGGTTGGTTCA
LOC_Os10g03160
OsAffx.8548.1.S1_at--544--3172Chr07:5346784..5347244 (25 bp)
CAATTCGTCGCTAACTTCCAAGGGA
NONE
OsAffx.8548.1.S1_at--1077--551Chr10:1321348..1321372 (25 bp)
ATGCCTTAGTCCAGAACCCGGGTGA
LOC_Os10g03160
OsAffx.8548.1.S1_at--868--2591Chr10:1321262..1321286 (25 bp)
AACGCTTCTGTGATCCGAACATTCA
LOC_Os10g03160
OsAffx.8548.1.S1_at--111--10451Chr10:1321235..1321259 (25 bp)
TTAGGCATCCGAGATCGCTACACTA
LOC_Os10g03160
OsAffx.8548.1.S1_at--540--3831Chr10:1321180..1321204 (25 bp)
CTGCCCACAAGCTAATCGAGATCGT
LOC_Os10g03160
OsAffx.8548.1.S1_at--344--511Chr10:1321160..1321184 (25 bp)
ATCGTCGACAGGTGTGCTCATGCAG
LOC_Os10g03160
Target Sequence 
GAAGAATTTCTCCACGTCTTCTCTACAGTTCTCTATGCTGCTGGTGCCAACGATCACGCGTTGGCAAACTATTTGCCTGC
CGCATTAAAAGGATCTGCTCGATCGTGGTTGGTTCATCTCCCGCCCTGCTCGATTTCTTCATGGGAGGACTTGTGGCAGC
AATTCGTCGCTAACTTCCAAGGGACGTACAAGCGCCACGCCATCGAGGACGACCTACATGCCTTAGTCCAGAACCCGGGT
GAATCCCTGAGGGACTATATTCGACGCTTTAACGAGTGCCGAAATACGATCCCCGAAATCACCAACGCTTCTGTGATCCG
AACATTCAAGTTAGGCATCCGAGATCGCTACACTACCCAGGAGTTAGCAACTCGACGAATTACTTCTGCCCACAAGCTAA
TCGAGATCGTCGACAGGTGTGCTCATGCAG

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.8548.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis