Browse Element(s) Details


OsAffx.12509.1.S1_at

Description gb:NM_195416.1
DB_XREF= gi:37532191
TID=OsAffx.12509.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative reverse transcriptase (OSJNBb0091B12.5), mRNA.
PROD=putative reverse transcriptase
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1337011/11retrotransposon protein, putative, unclassified
LOC_Os02g455302/11HOTHEAD protein precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g13340Os.45977.1.S1_at1/1110+6962485..6966162retrotransposon protein, putative, unclassified
LOC_Os10g13340Os.55127.1.S1_at1/1110+6962485..6966162retrotransposon protein, putative, unclassified
LOC_Os10g13350NANA10+6971729..6976617retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g13360NANA10+6978864..6979517retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g13370OsAffx.12509.1.S1_at11/1110+6984519..6990745retrotransposon protein, putative, unclassified
LOC_Os10g13380OsAffx.6659.1.S1_at11/1110+6992445..6993028hypothetical protein
LOC_Os10g13390OsAffx.21897.5.S1_x_at4/1110+6995065..6997989retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g13400Os.10703.2.S1_x_at1/1110+6998557..7004415retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g13410Os.55650.1.A1_at1/1110+7008321..7011006Zinc knuckle family protein
LOC_Os10g13420NANA10+7011157..7013436retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
GO:0007267biological_processcell-cell signaling
GO:0005576cellular_componentextracellular region
GO:0016832molecular_functionaldehyde-lyase activity
GO:0046593molecular_functionmandelonitrile lyase activity
GO:0050660molecular_functionFAD binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.12509.1.S1_at--510--7651Chr10:6985094..6985118 (25 bp)
GGGAGATATGCATGCCAATCGGCAA
LOC_Os10g13370
OsAffx.12509.1.S1_at--864--2651Chr10:6985031..6985055 (25 bp)
AAGCCTTGCGGCTCAAATGGGAATT
LOC_Os10g13370
OsAffx.12509.1.S1_at--1152--3251Chr10:6984931..6984955 (25 bp)
CAACTCCCTGGCAATTCATATACTT
LOC_Os10g13370
OsAffx.12509.1.S1_at--1117--831Chr10:6984902..6984926 (25 bp)
ATGGCAGCCACACTGACTTTTGCAG
LOC_Os10g13370
OsAffx.12509.1.S1_at--225--5391Chr10:6984854..6984878 (25 bp)
GAAGCATCGCAAACAATTGCCCCAC
LOC_Os10g13370
OsAffx.12509.1.S1_at--256--1431Chr10:6984810..6984834 (25 bp)
AGAACTAAGCTCATGGTTGCCCAAG
LOC_Os10g13370
OsAffx.12509.1.S1_at--505--4551Chr10:6984792..6984816 (25 bp)
GCCCAAGGTTTGATCTCGCACAGAT
LOC_Os10g13370
OsAffx.12509.1.S1_at--7--811Chr10:6984769..6984793 (25 bp)
ATGGGTCAGAGACCTTCAGGGTTCT
LOC_Os10g13370
OsAffx.12509.1.S1_at--386--972Chr02:27700097..27700179 (25 bp)
AGGAGGGTCCTATGATCTCTTCTTT
LOC_Os02g45530
OsAffx.12509.1.S1_at--214--10472Chr02:27700181..27700205 (25 bp)
TTACCTCAACTAAGTGCCCTTTTGG
LOC_Os02g45530
OsAffx.12509.1.S1_at--574--2671Chr10:6984551..6984575 (25 bp)
AAGCGCCAGCGAGAGTCAGATTTTT
LOC_Os10g13370
Target Sequence 
GGGAGATATGCATGCCAATCGGCAACGGGGGTTTGGGGATCAAGGATATCGACAGTTTTGGGAAAGCCTTGCGGCTCAAA
TGGGAATTCAAACGTCAAGAACAAAGAGACAGACCATGGACAATGGCAAATTGGGAATCAGAGAAAGATGTTGGAGATCT
TTTCAACTCCCTGGCAATTCATATACTTGGGGATGGCAGCCACACTGACTTTTGCAGGGGAAATTGGTTACCTCGAGGGG
GAAGCATCGCAAACAATTGCCCCACACTCTTCAGCTTTGTCAGCAGAACTAAGCTCATGGTTGCCCAAGGTTTGATCTCG
CACAGATGGGTCAGAGACCTTCAGGGTTCTCTTTCCAGCAGAGCTCTGGCTGAATACCTTTCTCTTTGGGATGAACTTCA
ATCGGTGGCTGTCCAGGAGGGTCCTATGATCTCTTCTTTCTTACCTCAACTAAGTGCCCTTTTGGGGAAGCAATTTGGAA
GACCAAAGCGCCAGCGAGAGTCAGATTTTT

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.12509.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis