Browse Element(s) Details


OsAffx.20440.2.S1_x_at

Description gb:NM_187905.1
DB_XREF= gi:34902893
TID=OsAffx.20440.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) unnamed protein product (Gene), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g1519011/11retrotransposon protein, putative, unclassified
LOC_Os10g222603/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g239802/11retrotransposon protein, putative, unclassified
LOC_Os03g364701/11retrotransposon protein, putative, unclassified
LOC_Os06g290601/11retrotransposon protein, putative, unclassified
LOC_Os11g226901/11retrotransposon protein, putative, unclassified
LOC_Os10g247701/11retrotransposon protein, putative, unclassified
LOC_Os03g238701/11retrotransposon protein, putative, unclassified
LOC_Os05g203701/11retrotransposon protein, putative, unclassified
LOC_Os09g020801/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g15130Os.50780.1.S1_at11/111+8487384..8489147hydrolase, alpha/beta fold family protein, expressed
LOC_Os01g15139OsAffx.22222.1.S1_x_at11/111+8489757..8490557hypothetical protein
LOC_Os01g15150OsAffx.11062.1.S1_at11/111+8493282..8493653hypothetical protein
LOC_Os01g15150OsAffx.22005.1.S1_x_at1/111+8493282..8493653hypothetical protein
LOC_Os01g15170Os.33.1.S1_at11/111+8501837..8502487hypothetical protein
LOC_Os01g15180OsAffx.22722.1.S1_x_at1/111+8506180..8511940retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g15190OsAffx.20440.2.S1_x_at11/111+8512301..8515211retrotransposon protein, putative, unclassified
LOC_Os01g15190OsAffx.20440.2.S1_at11/111+8512301..8515211retrotransposon protein, putative, unclassified
LOC_Os01g15190OsAffx.20440.1.S1_x_at1/111+8512301..8515211retrotransposon protein, putative, unclassified
LOC_Os01g15200Os.43777.1.S1_at9/111+8517789..8518356hypothetical protein
LOC_Os01g15210NANA1+8519598..8520992hypothetical protein
LOC_Os01g15220OsAffx.22222.3.S1_x_at11/111+8521973..8522956expressed protein
LOC_Os01g15220OsAffx.22222.3.S1_at11/111+8521973..8522956expressed protein
LOC_Os01g15229OsAffx.22222.1.S1_x_at11/111+8524356..8525156hypothetical protein
LOC_Os01g15240NANA1+8529014..8529721hypothetical protein
LOC_Os01g15250OsAffx.23257.1.S1_at11/111+8532477..8533844expressed protein
LOC_Os01g15260OsAffx.27867.1.S1_s_at11/111+8537445..8541331Dynein light chain 1, cytoplasmic, putative, expressed
LOC_Os01g15260Os.10666.1.S1_at9/111+8537445..8541331Dynein light chain 1, cytoplasmic, putative, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20440.2.S1_x_at--263--5912Chr10:11186817..11186838 (22 bp)
GAGCTCAACTCCATGAAACTAGATG
LOC_Os10g22260
OsAffx.20440.2.S1_x_at--811--6271Chr01:8512908..8512932 (25 bp)
GATGTACAATAGTCCAAGCTGCCAA
LOC_Os01g15190
OsAffx.20440.2.S1_x_at--144--4795Chr11:12580750..12580769 (20 bp)
GCTGCCAAGATCACCGAGCTGGAGA
LOC_Os11g22690
OsAffx.20440.2.S1_x_at--683--2432Chr10:11186470..11186607 (25 bp)
AAAAGGACAAGGGTGATCTCGCAAA
LOC_Os10g22260
OsAffx.20440.2.S1_x_at--29--2132Chr10:11186437..11186459 (23 bp)
ACAGGCTCAGTTTGATGTCTTGATT
LOC_Os10g22260
OsAffx.20440.2.S1_x_at--22--4752Chr05:11920253..11920659 (25 bp)
GCTGATCCAAGCCATGTTCTACAAT
LOC_Os05g20370
OsAffx.20440.2.S1_x_at--367--512Chr09:762489..762513 (25 bp)
ATCGATGCTGTTGAAGTCTTCGACA
LOC_Os09g02080
OsAffx.20440.2.S1_x_at--548--4771Chr01:8512546..8512570 (25 bp)
GCTGCTCCGGACACATGTTTCAAGA
LOC_Os01g15190
OsAffx.20440.2.S1_x_at--75--872Chr02:13897431..13897455 (25 bp)
ATGGCTCTAGCGATGACTAAGTCCT
LOC_Os02g23980
OsAffx.20440.2.S1_x_at--429--6313Chr10:12405485..12405508 (24 bp)
GATGACTAAGTCCTTGTATCCGAAG
LOC_Os10g24770
OsAffx.20440.2.S1_x_at--418--5351Chr01:8512408..8512432 (25 bp)
GAAGATGCCGTTGACATCATTAATG
LOC_Os01g15190
Target Sequence 
GAGCTCAACTCCATGAAACTAGATGTACAATAGTCCAAGCTGCCAAGATCACCGAGCTGGAGAAACGAATCAAAGCTCTC
GAAAAGGACAAGGGTGATCTCGCAAAGGAAAGAGACTTGGCCATCAAAGATGTCGAAGATCGCAAAATTAAATCACAGGC
TCAGTTTGATGTCTTGATTACCAAGATTAAAAAACTTGAAGAGGCTAGAGATGAAGTCGCCAATGCTGCTACACCGCTGA
TCCAAGCCATGTTCTACAATAACAATGGCCCGAGTACAATCGATGCTGTTGAAGTCTTCGACAAATTGAGAGCTGCTCCG
GACACATGTTTCAAGAATATCATGGAGGCTGGAAGCATGGGAGCAACCATGGCTCTAGCGATGACTAAGTCCTTGTATCC
GAAGATCGATATTGATGCCATTGATGGCTTTGCAGATGGAACAAGCGAAGAAGATGCCGTTGACATCATTAATG

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.20440.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis