Browse Element(s) Details


OsAffx.20879.1.S1_at

Description gb:XM_354385.1
DB_XREF= gi:35190930
GEN=P0710F09.23
TID=OsAffx.20879.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group).
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g319903/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g322203/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g216901/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g31940NANA6+18563509..18564178TNP2, putative
LOC_Os06g31950Os.52303.1.S1_x_at5/116+18568501..18573121retrotransposon protein, putative, unclassified
LOC_Os06g31950Os.52303.1.S1_at5/116+18568501..18573121retrotransposon protein, putative, unclassified
LOC_Os06g31950OsAffx.2719.1.S1_at2/116+18568501..18573121retrotransposon protein, putative, unclassified
LOC_Os06g31950OsAffx.12157.1.S1_at1/116+18568501..18573121retrotransposon protein, putative, unclassified
LOC_Os06g31960Os.8655.1.S1_at11/116+18577407..18578496Plant thionin family protein, expressed
LOC_Os06g31980NANA6+18583528..18583993transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g31990OsAffx.11392.2.S1_x_at5/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990OsAffx.20879.1.S1_at3/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990OsAffx.2719.1.S1_at2/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990OsAffx.9772.1.S1_at1/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990OsAffx.11392.1.S1_at1/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990Os.27004.1.A1_at1/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g31990OsAffx.19678.1.S1_at1/116+18586282..18592806retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g32000NANA6+18597083..18600545retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g32010Os.45173.1.S1_x_at1/116+18601538..18607335retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g32020Os.8655.1.S1_at11/116+18614733..18615797Plant thionin family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006979biological_processresponse to oxidative stress
GO:0009055molecular_functionelectron carrier activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20879.1.S1_at--375--8559Chr09:7129086..7129558 (25 bp)
TGGAGGCCCCATAAGTCAAGTAAAC
NONE
OsAffx.20879.1.S1_at--50--7051Chr07:12879312..12879336 (25 bp)
GTAAACACCTCGAAATGGGCCCATC
NONE
OsAffx.20879.1.S1_at--965--791Chr07:12879326..12879350 (25 bp)
ATGGGCCCATCTACTATGCCAATGG
NONE
OsAffx.20879.1.S1_at--327--5933Chr12:10149767..10149791 (25 bp)
ATGCCAATGGGCTGAGGGCCTCAAA
NONE
OsAffx.20879.1.S1_at--369--75532Chr11:11019273..11019296 (24 bp)
GGGCCTCAAAATTAGTGTCCACGAC
NONE
OsAffx.20879.1.S1_at--933--5411Chr07:12879417..12879441 (25 bp)
GAACCATTTCTGAGGCCGTTGATCC
NONE
OsAffx.20879.1.S1_at--641--6632Chr07:12879434..12879458 (25 bp)
GTTGATCCCGAGATTCGACGTGGAC
NONE
OsAffx.20879.1.S1_at--580--8833Chr07:12879464..12879488 (25 bp)
TGATTACTTCCTGATGGCGGTTGCG
NONE
OsAffx.20879.1.S1_at--754--559Chr07:12879673..12879697 (25 bp)
ATCCGACTTCTACCTCGATGAGTGT
NONE
OsAffx.20879.1.S1_at--926--1737Chr07:12879684..12879708 (25 bp)
ACCTCGATGAGTGTAGCTTCCTAAG
NONE
OsAffx.20879.1.S1_at--339--8031Chr07:12879721..12879840 (25 bp)
GGAGTACCTGGTTTCTTGGCTAATG
NONE
Target Sequence 
TGGAGGCCCCATAAGTCAAGTAAACACCTCGAAATGGGCCCATCTACTATGCCAATGGGCTGAGGGCCTCAAAATTAGTG
TCCACGACAAAAAAGGGCCAAACGGAGTCCTCCCGGGATCGGCCGAACCATTTCTGAGGCCGTTGATCCCGAGATTCGAC
GTGGACGGCCCTGATTACTTCCTGATGGCGGTTGCGGGAATAAGGAAGAGAGTGAGGGAAGCTCTGGAGGAGTGTCTAGA
AGTTTGGCGCTCATCCGACTTCTACCTCGATGAGTGTAGCTTCCTAAGAGGAATTCGGGTGGAGTACCTGGTTTCTTGGC
TAATG

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.20879.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis