Browse Element(s) Details


OsAffx.411.1.S1_at

Description gb:NM_194711.1
DB_XREF= gi:37530781
TID=OsAffx.411.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative Gypsy-Ty3 type retrotransposon RetroSor1, polyprotein (OSJNBb0072F04.8), mRNA.
PROD=putative Gypsy-Ty3 type retrotransposonRetroSor1, polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0398011/11retrotransposon protein, putative, unclassified
LOC_Os11g218902/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g421701/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g03940OsAffx.30266.1.S1_at11/1110+1773890..1774983hypothetical protein
LOC_Os10g03950OsAffx.8539.1.S1_at11/1110+1776363..1777238Legume lectins beta domain containing protein
LOC_Os10g03960OsAffx.30267.1.S1_at9/1110+1784206..1786243hypothetical protein
LOC_Os10g03970Os.46500.2.S1_at11/1110+1790877..1793610transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g03970Os.46500.1.S1_at4/1110+1790877..1793610transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g03980OsAffx.411.1.S1_at11/1110+1798619..1799149retrotransposon protein, putative, unclassified
LOC_Os10g03990OsAffx.20768.1.S1_at11/1110+1802311..1804703Protein kinase domain containing protein
LOC_Os10g04000OsAffx.30269.1.S1_at11/1110+1812945..1814525Protein kinase domain containing protein
LOC_Os10g04010OsAffx.30269.2.S1_at11/1110+1817352..1818929Protein kinase domain containing protein
LOC_Os10g04020Os.11251.1.S1_at11/1110+1822922..1824142F-box domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.411.1.S1_at--111--6111Chr10:1798774..1798798 (25 bp)
GAGTGCCGGTGTGACGAGCGTCGCG
LOC_Os10g03980
OsAffx.411.1.S1_at--732--3531Chr10:1798872..1798896 (25 bp)
CATCCTCATCGAAAAAGGCCAGCGG
LOC_Os10g03980
OsAffx.411.1.S1_at--456--4091Chr10:1798881..1798905 (25 bp)
CGAAAAAGGCCAGCGGCCAGGCTTT
LOC_Os10g03980
OsAffx.411.1.S1_at--1055--3911Chr10:1798894..1798918 (25 bp)
CGGCCAGGCTTTTGTGGCGAGTCTT
LOC_Os10g03980
OsAffx.411.1.S1_at--632--10598Chr10:1798917..1798941 (25 bp)
TTCGAAATGTCCGATGGCCCCCAAA
LOC_Os10g03980
OsAffx.411.1.S1_at--117--2336Chr10:1798939..1798963 (25 bp)
AAAGTTCCGGCCCAGCCTCACTGAG
LOC_Os10g03980
OsAffx.411.1.S1_at--916--8391Chr10:1798947..1798971 (25 bp)
GGCCCAGCCTCACTGAGAAGTACGA
LOC_Os10g03980
OsAffx.411.1.S1_at--230--9852Chr10:1799006..1799030 (25 bp)
TACACGATGATCATAGAGGCGGCGG
LOC_Os10g03980
OsAffx.411.1.S1_at--791--7391Chr10:1799034..1799058 (25 bp)
GTGATGATCAGGTCATGACGAGCTT
LOC_Os10g03980
OsAffx.411.1.S1_at--1069--6431Chr10:1799039..1799063 (25 bp)
GATCAGGTCATGACGAGCTTCTTCC
LOC_Os10g03980
OsAffx.411.1.S1_at--38--7131Chr10:1799045..1799069 (25 bp)
GTCATGACGAGCTTCTTCCCCATGG
LOC_Os10g03980
Target Sequence 
GAGTGCCGGTGTGACGAGCGTCGCGGCGCCAAAGCGGGGGAAGGCGCAGCCTCCTCAGGAGTGTCGCGCCACCCCAGGCA
GAAGGCTAGGCCCCCCCACATCCTCATCGAAAAAGGCCAGCGGCCAGGCTTTTGTGGCGAGTCTTCGAAATGTCCGATGG
CCCCCAAAGTTCCGGCCCAGCCTCACTGAGAAGTACGACGGCGGCGTCAACCCCTCCGAGTCCCTCCAGATCTACACGAT
GATCATAGAGGCGGCGGGGGGTGATGATCAGGTCATGACGAGCTTCTTCCCCATGG

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.411.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis