Browse Element(s) Details


OsAffx.422.1.S1_at

Description gb:NM_194644.1
DB_XREF= gi:37530647
TID=OsAffx.422.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNAa0079B05.17), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0314011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g262501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g357801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g486741/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g270201/11retrotransposon protein, putative, Ty3-gypsy subclass
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.422.1.S1_at--745--5871Chr10:1309534..1309558 (25 bp)
GAGCCCACCATACGGAACATCAAAG
LOC_Os10g03140
OsAffx.422.1.S1_at--52--9571Chr10:1309472..1309496 (25 bp)
TCTTCTCTTCGCTGGCACATTGGAC
LOC_Os10g03140
OsAffx.422.1.S1_at--693--1851Chr10:1309433..1309457 (25 bp)
ACGAAGCGAGTTGACCCCATCAGAT
LOC_Os10g03140
OsAffx.422.1.S1_at--195--9651Chr10:1309414..1309438 (25 bp)
TCAGATCAACCCTTCAAGCCATTGG
LOC_Os10g03140
OsAffx.422.1.S1_at--422--2812Chr01:20147156..20147175 (20 bp)
AAGATCACGCTACCCGTCACGTTTG
LOC_Os01g35780
OsAffx.422.1.S1_at--548--8491Chr10:1309364..1309388 (25 bp)
TGGACAGGCCGATAACTTCCGAACA
LOC_Os10g03140
OsAffx.422.1.S1_at--707--8711Chr10:1309322..1309346 (25 bp)
TGTCGCTGAATTTGATACGGCATAC
LOC_Os10g03140
OsAffx.422.1.S1_at--1133--311Chr10:1309308..1309332 (25 bp)
ATACGGCATACAAACCCATCTTAGG
LOC_Os10g03140
OsAffx.422.1.S1_at--733--431Chr10:1309291..1309315 (25 bp)
ATCTTAGGAAGGACCGCACTCGCGA
LOC_Os10g03140
OsAffx.422.1.S1_at--1000--5814Chr03:27697398..27697417 (20 bp)
GACCGCACTCGCGAAGTTTATGGCA
LOC_Os03g48674
OsAffx.422.1.S1_at--189--5331Chr10:1309268..1309292 (25 bp)
GAAGTTTATGGCAGCGTCCCACTAC
LOC_Os10g03140
Target Sequence 
GAGCCCACCATACGGAACATCAAAGTCGCACGGGTTCTCATCGACGGCGACAGCTCCATCAATCTTCTCTTCGCTGGCAC
ATTGGACGCGATGGGAATCCCACGAAGCGAGTTGACCCCATCAGATCAACCCTTCAAGCCATTGGGCAAGATCACGCTAC
CCGTCACGTTTGGACAGGCCGATAACTTCCGAACAGAGCAGGTCACCTTTGATGTCGCTGAATTTGATACGGCATACAAA
CCCATCTTAGGAAGGACCGCACTCGCGAAGTTTATGGCAGCGTCCCACTAC

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.422.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis