Browse Element(s) Details


OsAffx.20549.1.S1_at

Description gb:NM_195665.1
DB_XREF= gi:37532689
TID=OsAffx.20549.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNAa0053D03.16), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1744011/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g17380OsAffx.30435.1.S1_at11/1110+8427941..8429011hypothetical protein
LOC_Os10g17390OsAffx.30436.1.S1_at11/1110+8430995..8433005hypothetical protein
LOC_Os10g17400NANA10+8437280..8442540retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17410OsAffx.278.1.S1_at11/1110+8443823..8447820retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17430OsAffx.8303.1.S1_at11/1110+8449734..8450321retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17440OsAffx.20549.1.S1_at11/1110+8451569..8452468retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g17454Os.7927.2.S1_x_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.7927.1.S1_a_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.7927.1.S1_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.52390.1.S1_at11/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454OsAffx.30437.1.S1_x_at10/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454OsAffx.30437.1.S1_at3/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17454Os.54271.1.S1_at1/1110+8455650..8465123RNA recognition motif family protein, expressed
LOC_Os10g17470OsAffx.20548.1.S1_at1/1110+8473882..8477208retrotransposon protein, putative, unclassified, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20549.1.S1_at--186--31Chr10:8451883..8451907 (25 bp)
ATTGGCGTCGAAGGACACCGCGAAG
LOC_Os10g17440
OsAffx.20549.1.S1_at--764--4891Chr10:8451970..8451994 (25 bp)
GCAGTCCCTACGCAAGGAGTTCGAG
LOC_Os10g17440
OsAffx.20549.1.S1_at--270--8051Chr10:8452013..8452037 (25 bp)
GGAGAGTCTGTAGACGACTTCGCCA
LOC_Os10g17440
OsAffx.20549.1.S1_at--1112--9391Chr10:8452053..8452077 (25 bp)
TCGTCAACAACATCCATACCTTGGG
LOC_Os10g17440
OsAffx.20549.1.S1_at--32--1471Chr10:8452107..8452131 (25 bp)
AGAAGTTTCTTCGTGTGGTTCCATC
LOC_Os10g17440
OsAffx.20549.1.S1_at--679--6691Chr10:8452124..8452148 (25 bp)
GTTCCATCCAAGTACACCCAAGTGG
LOC_Os10g17440
OsAffx.20549.1.S1_at--79--3851Chr10:8452175..8452199 (25 bp)
CTGAAGACGCTGTCCGTTGAGGAAC
LOC_Os10g17440
OsAffx.20549.1.S1_at--900--6631Chr10:8452190..8452214 (25 bp)
GTTGAGGAACTTACCGGCCGTCTCA
LOC_Os10g17440
OsAffx.20549.1.S1_at--798--8411Chr10:8452205..8452229 (25 bp)
GGCCGTCTCAAGTCCGTGGAAGAAA
LOC_Os10g17440
OsAffx.20549.1.S1_at--825--2711Chr10:8452257..8452281 (25 bp)
AAGCATATGGCCGTTTACTGCTCAC
LOC_Os10g17440
OsAffx.20549.1.S1_at--871--2311Chr10:8452342..8452366 (25 bp)
AAAGGTGCGCTGCTACAAGTGCCAA
LOC_Os10g17440
Target Sequence 
ATTGGCGTCGAAGGACACCGCGAAGGAGGCGTGGGAGGCCGTGCGCACGATGCGCATGGGCGTTGAGCGTGTGCGCGAGG
CGAAGGCGCAGTCCCTACGCAAGGAGTTCGAGCTGATCCGCATGAAGGAAGGAGAGTCTGTAGACGACTTCGCCATGCGG
CTAACGGGCCTCGTCAACAACATCCATACCTTGGGTGCAATGATGGAAGAAGAGATGGTGGTCAAGAAGTTTCTTCGTGT
GGTTCCATCCAAGTACACCCAAGTGGCCATCTCCATCGAGCAGCTGATCGATCTGAAGACGCTGTCCGTTGAGGAACTTA
CCGGCCGTCTCAAGTCCGTGGAAGAAAGGTATGAAATCGATGGCAATGGAAGTGAAGCATATGGCCGTTTACTGCTCACG
GAAGAGCAGTGGATGGAACGCATGAAGAGCAAGAAGAAGAAGGACACCTTTGACAAGGCAAAGGTGCGCTGCTACAAGTG
CCAA

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.20549.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis