Browse Element(s) Details


OsAffx.21235.1.S1_at

Description gb:NM_193419.1
DB_XREF= gi:34913921
GEN=OSJNBa0066C06.12
TID=OsAffx.21235.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) OSJNBa0066C06.12 (OSJNBa0066C06.12), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g3714011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g206891/113' exoribonuclease family domain 1-containing protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g37120Os.32193.2.S1_x_at10/111+21043881..21049101transducin family protein, putative, expressed
LOC_Os01g37120Os.32193.1.S1_at10/111+21043881..21049101transducin family protein, putative, expressed
LOC_Os01g37130Os.15194.1.S1_at8/111+21065437..21069274Protein phosphatase 2C PPH1, putative, expressed
LOC_Os01g37140OsAffx.21235.1.S1_at11/111+21071144..21072632retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g37160OsAffx.8993.1.S1_at11/111+21082203..21083244retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g37170NANA1+21087422..21088454retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g37180NANA1+21092951..21093304hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006396biological_processRNA processing
GO:0000175molecular_function3'-5'-exoribonuclease activity
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.21235.1.S1_at--349--1191Chr01:21071671..21072104 (25 bp)
AGTAGCTTTGTTAGGAGGTCATTCA
LOC_Os01g37140
OsAffx.21235.1.S1_at--960--5371Chr01:21072108..21072132 (25 bp)
GAAGAATGCTGGCACATGGCCCATT
LOC_Os01g37140
OsAffx.21235.1.S1_at--1130--992Chr11:11959733..11959787 (25 bp)
AGGATCTTCATTGGGTATTGAGTCA
LOC_Os11g20689
OsAffx.21235.1.S1_at--1009--2591Chr01:21072363..21072387 (25 bp)
AACCCACCAACTTACTCAAAGACAG
LOC_Os01g37140
OsAffx.21235.1.S1_at--1114--5631Chr01:21072383..21072407 (25 bp)
GACAGTAATTTCCTTTGGTCCAGAA
LOC_Os01g37140
OsAffx.21235.1.S1_at--688--7611Chr01:21072416..21072440 (25 bp)
GGGAATCTTGTTTCCCCATCAAGAT
LOC_Os01g37140
OsAffx.21235.1.S1_at--259--3232Chr06:13490240..13490264 (25 bp)
CAAGATCCTTTGGTAGTTTCGGTAG
NONE
OsAffx.21235.1.S1_at--84--6851Chr01:21072450..21072474 (25 bp)
GTTTCGGTAGAAATCACCCAATGTG
LOC_Os01g37140
OsAffx.21235.1.S1_at--482--8192Chr06:13490306..13490329 (24 bp)
GGAAGCTCGGCGGATGTGCTTTTTT
NONE
OsAffx.21235.1.S1_at--265--60330Chr11:26139209..26139232 (24 bp)
GAGAGGCCTCTCCAATTAGTCTTAA
NONE
OsAffx.21235.1.S1_at--155--5632Chr01:21072574..21072598 (25 bp)
GACACCCATGTGCTAGTACTTTAGG
LOC_Os01g37140
Target Sequence 
AGTAGCTTTGTTAGGAGGTCATTCAATAGAAGAATGCTGGCACATGGCCCATTTGGTGGAAAAACACATCAATCAATATG
AGAACAAGTATAAAGGGGCTCGAGAGCAACGAGCGCAAAATGCTATAGAAGCACCGCAAGTTTTAAAGATAGAAGCAATT
GATGAGGTACCGAAAAGGGTAATCAATGCCATAACAGAAGGATCTTCATTGGGTATTGAGTCAAAGAGACAAAGAAAGGC
ATATGTCAGACAGATAAACCATGTAGGAACAAGTAACCAGTCAAACCCACCAACTTACTCAAAGACAGTAATTTCCTTTG
GTCCAGAAGATGCTGAGGGAATCTTGTTTCCCCATCAAGATCCTTTGGTAGTTTCGGTAGAAATCACCCAATGTGAAGTA
CAAAGGGTGTTGATTGATGGGGGAAGCTCGGCGGATGTGCTTTTTTTTACAGTAAATCTAATTGGAGAGGCCTCTCCAAT
TAGTCTTAACCAGAGACACCCATGTGCTAGTACTTTAGG

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.21235.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis