Browse Element(s) Details


Os.27408.1.S2_at

Description gb:AK120243.1
DB_XREF= gi:37989866
TID=Os.27408.1
CNT=13
FEA=FLmRNA
TIER=FL
STK=1
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:J013044H03, 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.S2_at--1107--2451Chr10:1849626..1849650 (25 bp)
AACAAGCGAAATGCTGCCACACGTC
LOC_Os10g04050
Os.27408.1.S2_at--880--2151Chr10:1849654..1849678 (25 bp)
ACAGCTCTCACCGACTAGTTTTGCG
LOC_Os10g04050
Os.27408.1.S2_at--106--8431Chr10:1849679..1849703 (25 bp)
GGCCTGTCCATACTCATGTCATAGA
LOC_Os10g04050
Os.27408.1.S2_at--559--8731Chr10:1849722..1849746 (25 bp)
TGTCAACAAGCTCCCACAACAAAGT
LOC_Os10g04050
Os.27408.1.S2_at--221--2471Chr10:1849739..1849763 (25 bp)
AACAAAGTGCAATCCTCTGCTCCTA
LOC_Os10g04050
Os.27408.1.S2_at--95--8576Chr10:1849869..1849893 (25 bp)
TGGATGTGACACGTCCTAGTACAAT
LOC_Os10g04050
Os.27408.1.S2_at--353--10091Chr10:1849930..1849954 (25 bp)
TAGGATTTGTTACATCCACCCAAAA
LOC_Os10g04050
Os.27408.1.S2_at--23--4631Chr10:1850058..1850082 (25 bp)
GCGATTTAGTCAAGTTTCCTGGGAT
LOC_Os10g04050
Os.27408.1.S2_at--989--9314Chr10:1850098..1850122 (25 bp)
TCGCCACCTTCGTGTGGTTTGATGA
LOC_Os10g04050
Os.27408.1.S2_at--151--2838Chr11:25150150..25150174 (25 bp)
AAGTTGACTGGCACGCTGAGTCCCA
NONE
Os.27408.1.S2_at--618--3113Chr10:1850165..1850189 (25 bp)
AATATCTCATTTGCTCTTTACTCGA
LOC_Os10g04050
Target Sequence 
AACAAGCGAAATGCTGCCACACGTCTTCACAGCTCTCACCGACTAGTTTTGCGGGCCTGTCCATACTCATGTCATAGATC
CAAATGGCACTTACAATGTCAACAAGCTCCCACAACAAAGTGCAATCCTCTGCTCCTACCCCTCAGGACCAAAAAGTGAA
GAAATCAACTACTAAGAAGAGAAAAACCAGGTAGGTAGATTTGTGTGAAAAATTGTAGTTACTTAGTGCTTATGCATGAA
TTATGGATGTGACACGTCCTAGTACAATGAATCTGGACAGACCGTGTGTCCAGATTCATTATACTAGGATTTGTTACATC
CACCCAAAATCCCTTATGTTATGGGACAGAGGGAGTATGTACAAATGTTTTGGATTTGGACTTACAATATATATGTAAAT
GTTTAGAGCATCTGAGATGTTGTAGAGCTCTAGCGATTTAGTCAAGTTTCCTGGGATGTGTAACACATCTGGTCGCCACC
TTCGTGTGGTTTGATGAGCACATCTCAGGCTGAAGTTGACTGGCACGCTGAGTCCCAACAATATCTCATTTGCTCTTTAC
TCGA

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.S2_at     

Putative homologies in rice

Putative homologies in arabidopsis