Browse Element(s) Details


Os.27408.1.S1_at

Description gb:AK066967.1
DB_XREF= gi:32976985
TID=Os.27408.1
CNT=13
FEA=FLmRNA
TIER=FL
STK=5
UG=Os.27408 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-039-F03, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013090L19, full insert sequence.
FL= gb:AK104790.1 gb:AK066967.1 gb:AK120243.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0405011/11transposon protein, putative, CACTA, En/Spm sub-class, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g04010OsAffx.30269.2.S1_at11/1110+1817352..1818929Protein kinase domain containing protein
LOC_Os10g04020Os.11251.1.S1_at11/1110+1822922..1824142F-box domain containing protein, expressed
LOC_Os10g04030OsAffx.18119.1.S1_at11/1110+1825900..1826994hypothetical protein
LOC_Os10g04030OsAffx.30317.1.S1_at1/1110+1825900..1826994hypothetical protein
LOC_Os10g04040Os.46012.2.S1_x_at5/1110+1832146..1836361retrotransposon protein, putative, unclassified
LOC_Os10g04040Os.27088.1.A1_x_at3/1110+1832146..1836361retrotransposon protein, putative, unclassified
LOC_Os10g04040Os.46012.3.S1_x_at3/1110+1832146..1836361retrotransposon protein, putative, unclassified
LOC_Os10g04050Os.27408.1.S2_at11/1110+1842381..1850220transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04050Os.27408.1.S1_at11/1110+1842381..1850220transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04060OsAffx.30270.1.S1_at11/1110+1855157..1859683NB-ARC domain containing protein
LOC_Os10g04074Os.35046.2.S1_x_at11/1110+1864083..1871881retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g04074Os.35046.1.S1_at11/1110+1864083..1871881retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g04074Os.14086.1.S1_s_at11/1110+1864083..1871881retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g04074Os.46478.1.S1_at10/1110+1864083..1871881retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g04090Os.46735.1.S1_at11/1110+1874201..1878141NB-ARC domain containing protein, expressed
LOC_Os10g04090OsAffx.8602.1.S1_s_at11/1110+1874201..1878141NB-ARC domain containing protein, expressed
LOC_Os10g04090OsAffx.8602.1.S1_x_at6/1110+1874201..1878141NB-ARC domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.27408.1.S1_at--238--652Chr10:1844244..1844268 (25 bp)
ATGCAGGATGCAACCCACCAAAGTT
LOC_Os10g04050
Os.27408.1.S1_at--451--355Chr11:8465778..8465797 (20 bp)
ATAACTTCCATATCCAAGCCATAGA
NONE
Os.27408.1.S1_at--660--2651Chr10:1844313..1844337 (25 bp)
AAGCCATAGAGTTTTGAGCCCACAA
LOC_Os10g04050
Os.27408.1.S1_at--18--8935Chr12:6764325..6764349 (25 bp)
TGAGCCCACAAACCCAATAAGATAC
NONE
Os.27408.1.S1_at--12--10351Chr10:1844353..1844377 (25 bp)
TTTATCTTGAGCCAAACTTCAGTAG
LOC_Os10g04050
Os.27408.1.S1_at--867--1172Chr10:1844373..1844397 (25 bp)
AGTAGAACATATAGTGGGACCCACA
LOC_Os10g04050
Os.27408.1.S1_at--975--1814Chr11:8465871..8465895 (25 bp)
ACCCACATGTCAGAACACCAGAGAA
NONE
Os.27408.1.S1_at--601--3711Chr10:1844461..1844485 (25 bp)
CTAGCCCAACCAGCACAATATTTTA
LOC_Os10g04050
Os.27408.1.S1_at--341--1216Chr12:6764448..6764471 (24 bp)
AGTTATCCTCATCCTATGACGGTTA
NONE
Os.27408.1.S1_at--959--6331Chr10:1844583..1844607 (25 bp)
GATGCTCTTAGGATTCTATGTTGAA
LOC_Os10g04050
Os.27408.1.S1_at--703--3111Chr10:1844606..1844630 (25 bp)
AATATTTCACAGTATCTCCACTCTC
LOC_Os10g04050
Target Sequence 
ATGCAGGATGCAACCCACCAAAGTTGAGATGAAATGTACATGAAGGATGAGAATATAACTTCCATATCCAAGCCATAGAG
TTTTGAGCCCACAAACCCAATAAGATACATTTATCTTGAGCCAAACTTCAGTAGAACATATAGTGGGACCCACATGTCAG
AACACCAGAGAAGGAGCTAGGCTGGATGGGCCAGCCAGGGTTCGGCTGAACCAGCAGCTAGCCCAACCAGCACAATATTT
TACCAACTGATAGTTATCCTCATCCTATGACGGTTAGGAGCGTTAATACTGGTGGAAACCGTCATCAAGAGGACACATGG
CAAAAGGAGAAGTTAAGAAGATGCTCTTAGGATTCTATGTTGAATATTTCACAGTATCTCCACTCTC

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 Os.27408.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis