Browse Element(s) Details


OsAffx.8479.1.S1_at

Description gb:NM_194976.1
DB_XREF= gi:37531311
TID=OsAffx.8479.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative pol polyprotein (OSJNBb0042K08.6), mRNA.
PROD=putative pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0746011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g1200010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g3559010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g705407/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os04g182442/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g07420OsAffx.25595.2.S1_x_at3/1110+3910457..3910903hypothetical protein
LOC_Os10g07420OsAffx.25595.2.S1_at2/1110+3910457..3910903hypothetical protein
LOC_Os10g07430Os.46567.1.S1_at11/1110+3917158..3919926expressed protein
LOC_Os10g07440NANA10+3925348..3926042expressed protein
LOC_Os10g07450Os.16105.1.S1_at11/1110+3933608..3934170expressed protein
LOC_Os10g07460OsAffx.8479.1.S1_at11/1110+3934703..3942547retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g07460Os.50619.1.S1_at1/1110+3934703..3942547retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g07470OsAffx.30332.1.S1_at11/1110+3946452..3952705hypothetical protein
LOC_Os10g07470Os.55169.1.S1_at11/1110+3946452..3952705hypothetical protein
LOC_Os10g07480Os.7212.1.S1_at11/1110+3963276..3967603expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8479.1.S1_at--376--1173Chr11:20368571..20368595 (25 bp)
AGTCACCCAGGGAAGATCATCTCGC
LOC_Os11g35590
OsAffx.8479.1.S1_at--1105--8193Chr11:20368500..20368524 (25 bp)
GGAATTCGATTTGGCCCAGGTGCAC
LOC_Os11g35590
OsAffx.8479.1.S1_at--150--1934Chr01:41184161..41184189 (25 bp)
ACGGTGCGCTTTGCCAATGTTGGTT
LOC_Os01g70540
OsAffx.8479.1.S1_at--614--9913Chr11:20368449..20368473 (25 bp)
TACTCTGACAGTGATCTGGCTGGCG
LOC_Os11g35590
OsAffx.8479.1.S1_at--15--5574Chr01:41184226..41184250 (25 bp)
GAAAGAGCACGTCCGGCCAGATTTT
LOC_Os01g70540
OsAffx.8479.1.S1_at--204--1252Chr10:3935100..3935124 (25 bp)
AGATTTTCTTCGTCAATGGCGGGCC
LOC_Os10g07460
OsAffx.8479.1.S1_at--384--8674Chr01:41184315..41184339 (25 bp)
TGTGAGGCCGAGTACATCGCCGCAG
LOC_Os01g70540
OsAffx.8479.1.S1_at--198--4534Chr01:41184339..41184363 (25 bp)
GCCGCCGCAACATGTCAAGGAGTAT
LOC_Os01g70540
OsAffx.8479.1.S1_at--203--8154Chr01:41184425..41184449 (25 bp)
GGACAACCAGTCCACAATATCATTG
LOC_Os01g70540
OsAffx.8479.1.S1_at--71--2294Chr01:41184455..41184479 (25 bp)
AAATCCAGTGCATCATGACCGGAGT
LOC_Os01g70540
OsAffx.8479.1.S1_at--851--5115Chr01:41184598..41184621 (24 bp)
GAACCAGGTTTCAGGAGCTTCGTTT
LOC_Os01g70540
Target Sequence 
AGTCACCCAGGGAAGATCATCTCGCAGCCGTTCGGCGCATACTGCGCTATGTGGCAGGCACTCGCTGCTGGGGAATTCGA
TTTGGCCCAGGTGCACGGTGCGCTTTGCCAATGTTGGTTGGTTACTCTGACAGTGATCTGGCTGGCGATCCAGATGAGCG
AAAGAGCACGTCCGGCCAGATTTTCTTCGTCAATGGCGGGCCTATCACTTGGCAGTCCTCCAAGCAGAAGGTGGTGGCAT
TGTCCTCCTGTGAGGCCGAGTACATCGCCGCAGCCGCCGCAACATGTCAAGGAGTATGGCTCGCGCGGCTGTTAGCGGAG
GTGCTGGGCGACGAGATCGCCGCACCGCTGCTGAAGGTGGACAACCAGTCCACAATATCATTGATAAAAAATCCAGTGCA
TCATGACCGGAGTAAGCATATCGATGTCAAATATCATTATATCCGGGAGTGTGCAGAAAAGAAACTGATCGAAATGATGT
TCGTGGGAACTGCGGAGCAGCTCGGTGATATATTCACCAAATCTCTGGGCAGAACCAGGTTTCAGGAGCTTCGTTT

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.8479.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis