Browse Element(s) Details


OsAffx.493.1.S1_x_at

Description gb:XM_354329.1
DB_XREF= gi:35190408
TID=OsAffx.493.1
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_Os09g120608/11hypothetical protein
LOC_Os11g288302/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g075301/11hypothetical protein
LOC_Os03g337801/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g12040NANA9+6782925..6790685retrotransposon protein, putative, unclassified
LOC_Os09g12050Os.46557.2.S1_x_at8/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050Os.46557.1.S1_x_at6/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050Os.56073.1.S1_at4/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050Os.46557.1.S1_at4/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050Os.8753.4.S1_x_at3/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050Os.8753.4.S1_at2/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050OsAffx.5618.1.S1_x_at1/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12050OsAffx.5618.1.S1_at1/119+6802261..6805757transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12060OsAffx.493.1.S1_x_at8/119+6806908..6809609hypothetical protein
LOC_Os09g12070OsAffx.30350.1.S1_at1/119+6813647..6815509retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g12080OsAffx.17656.1.S1_at11/119+6817035..6819807hypothetical protein
LOC_Os09g12080OsAffx.4390.1.S1_at1/119+6817035..6819807hypothetical protein
LOC_Os09g12090Os.46785.2.S1_x_at4/119+6826191..6830166retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g12090OsAffx.30226.2.S1_x_at2/119+6826191..6830166retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g12090OsAffx.442.1.S1_x_at1/119+6826191..6830166retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g12100Os.45976.1.S1_at2/119+6834261..6837068transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g12100Os.45976.1.S1_x_at2/119+6834261..6837068transposon protein, putative, CACTA, En/Spm sub-class

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.493.1.S1_x_at--545--58310Chr09:6808392..6808416 (25 bp)
GACCGGCGACGCGATGGAAAGATTA
LOC_Os09g12060
OsAffx.493.1.S1_x_at--977--916Chr09:6808443..6808467 (25 bp)
ATTCGAGATCGAATCCGCGAATTTC
LOC_Os09g12060
OsAffx.493.1.S1_x_at--735--106116Chr09:6808444..6808468 (25 bp)
TTCGAGATCGAATCCGCGAATTTCC
LOC_Os09g12060
OsAffx.493.1.S1_x_at--498--93716Chr09:6808445..6808469 (25 bp)
TCGAGATCGAATCCGCGAATTTCCA
LOC_Os09g12060
OsAffx.493.1.S1_x_at--176--40718Chr09:6808446..6808470 (25 bp)
CGAGATCGAATCCGCGAATTTCCAA
LOC_Os09g12060
OsAffx.493.1.S1_x_at--958--52515Chr09:6808453..6808477 (25 bp)
GAATCCGCGAATTTCCAAAGCGATT
LOC_Os09g12060
OsAffx.493.1.S1_x_at--415--30314Chr09:6808454..6808478 (25 bp)
AATCCGCGAATTTCCAAAGCGATTT
LOC_Os09g12060
OsAffx.493.1.S1_x_at--216--23526Chr11:20316756..20316780 (25 bp)
AAAGCGATTTAGACGATGTTTCCAA
NONE
OsAffx.493.1.S1_x_at--376--15927Chr11:20316758..20316782 (25 bp)
AGCGATTTAGACGATGTTTCCAAAA
NONE
OsAffx.493.1.S1_x_at--379--65328Chr11:20316761..20316785 (25 bp)
GATTTAGACGATGTTTCCAAAAGGG
NONE
OsAffx.493.1.S1_x_at--349--120Chr11:20316782..20316806 (25 bp)
AGGGAAAAGGTAGAGTGGATCACGG
NONE
Target Sequence 
GACCGGCGACGCGATGGAAAGATTAGGGTTCAGGAGAGAGAGACGAATCCGATTCGAGATCGAATCCGCGAATTTCCAAA
GCGATTTAGACGATGTTTCCAAAAGGGAAAAGGTAGAGTGGATCACGG

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.493.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis