Browse Element(s) Details


OsAffx.23640.1.S1_x_at

Description gb:NM_192829.1
DB_XREF= gi:34912741
GEN=B1040D09.19
TID=OsAffx.23640.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) B1040D09.19 (B1040D09.19), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g631501/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os07g276901/11retrotransposon protein, putative, unclassified
LOC_Os11g033601/11hypothetical protein
LOC_Os02g361001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g636001/11transposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g63100NANA1+36891035..36896658retrotransposon protein, putative, unclassified
LOC_Os01g63110Os.28943.1.S1_x_at3/111+36897278..36898858retrotransposon protein, putative, unclassified
LOC_Os01g63120NANA1+36902994..36907445retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g63130Os.27691.2.S1_x_at1/111+36907695..36908836retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g63140NANA1+36912147..36913010retrotransposon protein, putative, unclassified
LOC_Os01g63150Os.42422.1.S1_at11/111+36914640..36927340retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os01g63150OsAffx.23640.3.S1_x_at6/111+36914640..36927340retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os01g63150OsAffx.22659.1.A1_at2/111+36914640..36927340retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os01g63150OsAffx.23640.1.S1_x_at1/111+36914640..36927340retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os01g63160Os.30620.1.S1_at11/111+36933384..36934984Myb-like DNA-binding domain containing protein, expressed
LOC_Os01g63170Os.38395.4.S1_x_at11/111+36937626..36941762transposon protein, putative, Mutator sub-class
LOC_Os01g63170Os.38395.3.S1_x_at10/111+36937626..36941762transposon protein, putative, Mutator sub-class
LOC_Os01g63170Os.38395.1.S1_at8/111+36937626..36941762transposon protein, putative, Mutator sub-class
LOC_Os01g63170Os.38395.2.S1_x_at8/111+36937626..36941762transposon protein, putative, Mutator sub-class
LOC_Os01g63180Os.42421.1.S1_at11/111+36943980..36948365Multicopper oxidase family protein, expressed
LOC_Os01g63180Os.18847.1.S1_at6/111+36943980..36948365Multicopper oxidase family protein, expressed
LOC_Os01g63190Os.14830.1.S1_a_at11/111+36949678..36954511Multicopper oxidase family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006278biological_processRNA-dependent DNA replication
GO:0003676molecular_functionnucleic acid binding
GO:0003723molecular_functionRNA binding
GO:0003964molecular_functionRNA-directed DNA polymerase activity
GO:0004523molecular_functionribonuclease H activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.23640.1.S1_x_at--175--8271Chr01:24991232..24991256 (25 bp)
GGCAGCAAGGCCTTCTCCGACAGCG
NONE
OsAffx.23640.1.S1_x_at--104--1652Chr03:12350126..12350183 (25 bp)
AGCGACGCATCCTCTCAGGCGCGGG
NONE
OsAffx.23640.1.S1_x_at--583--3595Chr10:20883311..20883569 (25 bp)
CATTGAAAGGATTGCACTTAATCTG
NONE
OsAffx.23640.1.S1_x_at--94--3674Chr08:17281461..17281485 (25 bp)
CTTAATCTGTTTGCACCGTCTGCAA
NONE
OsAffx.23640.1.S1_x_at--311--9474Chr08:17281466..17281490 (25 bp)
TCTGTTTGCACCGTCTGCAAGGCAG
NONE
OsAffx.23640.1.S1_x_at--349--3851Chr11:3608181..3608705 (25 bp)
CTGCAAGGCAGACCGCATATGGTAA
NONE
OsAffx.23640.1.S1_x_at--1074--2913Chr09:10219593..10220104 (25 bp)
AAGGCAGACCGCATATGGTAAACCT
NONE
OsAffx.23640.1.S1_x_at--446--26580Chr12:27144756..27144780 (25 bp)
AAGCCTTAAGGTCTCTAGTCGTGGC
NONE
OsAffx.23640.1.S1_x_at--444--104913Chr11:22758403..22758879 (25 bp)
TTAAGGTCTCTAGTCGTGGCCGTAC
NONE
OsAffx.23640.1.S1_x_at--46--10071Chr01:24988561..24988585 (25 bp)
TAGTCGTGGCCGTACTGCACGGGCT
NONE
OsAffx.23640.1.S1_x_at--16--9934Chr10:3559375..3559395 (21 bp)
TACTGCACGGGCTGGATGATCCGGT
NONE
Target Sequence 
GGCAGCAAGGCCTTCTCCGACAGCGACGCATCCTCTCAGGCGCGGGGAGGCGCCCTCCCTCTCCGCTCTCGCTGCCGTTC
CCGCCGATGCCGCCCAAATTGCCGCACCGCCCGCGCGCGCGCGCCGTGGTGGCCGACCGGCTAGTCGCCGCCGCCGTCAG
CGCCTGCCGCCCGTGTCGTCGCTCCGTTCCAAACCGCCCCGCCGTCATCGCCGTCGTCATCGACTCGGCCCCGCCTCTCC
CCGCGCTTTCGGAGCCCGAAGACCCGCAGTGCGAGGATTTTGAGGATCAAGCTCAAGATCTCGAGCAAGGCAAGCCACCT
TTGAACATATTGAGCCTATATTTGAACTTAATTATATTGCTTGCAAAGTATTATGCATTGAAAGGATTGCACTTAATCTG
TTTGCACCGTCTGCAAGGCAGACCGCATATGGTAAACCTGTGTCGGCTTTCGAAATGCCTTGTCATGAAAGCCTTAAGGT
CTCTAGTCGTGGCCGTACTGCACGGGCTGGATGATCCGGT

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.23640.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis