Browse Element(s) Details


Os.40388.2.S1_x_at

Description gb:NM_194814.1
DB_XREF= gi:37530987
TID=Os.40388.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.40388 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) hypothetical protein (OSJNBa0034A02.12), mRNA
DEF=Oryza sativa (japonica cultivar-group) hypothetical protein (OSJNBa0034A02.12), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0529011/11tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g253008/11expressed protein
LOC_Os07g403903/11hypothetical protein
LOC_Os03g011102/11RNA methyltransferase, TrmH family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g05250Os.21240.2.S1_at8/1110+2576663..2580782Protein kinase domain containing protein, expressed
LOC_Os10g05270OsAffx.8523.1.S1_at10/1110+2590932..2593264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05270OsAffx.14019.1.S1_at1/1110+2590932..2593264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05280NANA10+2595176..2596265retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05290Os.46392.1.S1_s_at11/1110+2598950..2602808tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g05290Os.40388.2.S1_x_at11/1110+2598950..2602808tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g05290Os.40388.2.S1_s_at11/1110+2598950..2602808tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g05290Os.40388.1.S1_at4/1110+2598950..2602808tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g05290Os.4648.1.S1_at1/1110+2598950..2602808tRNA/rRNA methyltransferase, putative, expressed
LOC_Os10g05300OsAffx.18139.1.S1_at11/1110+2603646..2607190hypothetical protein
LOC_Os10g05309NANA10+2607958..2608341hypothetical protein
LOC_Os10g05320OsAffx.31869.5.S1_x_at11/1110+2611781..2612578retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05320OsAffx.31869.4.S1_x_at1/1110+2611781..2612578retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g05329NANA10+2613607..2613990hypothetical protein
LOC_Os10g05340Os.46557.2.S1_x_at11/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05340Os.46557.1.S1_x_at4/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05340OsAffx.21157.1.S1_x_at3/1110+2616803..2618194transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g05360NANA10+2627496..2629346hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006396biological_processRNA processing
GO:0003723molecular_functionRNA binding
GO:0008173molecular_functionRNA methyltransferase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.40388.2.S1_x_at--307--7132Chr10:2600244..2600268 (25 bp)
GTCATGTATCATCAATCCTCTTTAT
LOC_Os10g05290
Os.40388.2.S1_x_at--231--1052Chr10:2600283..2600307 (25 bp)
AGGTGCACCTCATCAGCTTAAGCTC
LOC_Os10g05290
Os.40388.2.S1_x_at--757--10494Chr10:2600300..2600400 (25 bp)
TTAAGCTCTCAAGGTCTGGCTTCTT
LOC_Os10g05290
Os.40388.2.S1_x_at--505--8552Chr10:2600400..2600424 (25 bp)
TGGAGTCTATATGGGCCTCGTGCCA
LOC_Os10g05290
Os.40388.2.S1_x_at--269--4271Chr10:2600444..2600468 (25 bp)
CCTGCTGAGTGCCTGGATGCTTATA
LOC_Os10g05290
Os.40388.2.S1_x_at--904--632Chr10:2600460..2600484 (25 bp)
ATGCTTATAACATACTCTCTCTCTC
LOC_Os10g05290
Os.40388.2.S1_x_at--1117--9514Chr10:2600481..2600505 (25 bp)
TCTCTCTCTACTTGTCAACACTGAA
LOC_Os10g05290
Os.40388.2.S1_x_at--489--3111Chr10:2600505..2600529 (25 bp)
AATATGTTTTCTCAGGACCTCACGA
LOC_Os10g05290
Os.40388.2.S1_x_at--907--5273Chr10:2600763..2600787 (25 bp)
GAATGATGCCGCTCAGCAATGCTCC
LOC_Os10g05290
Os.40388.2.S1_x_at--110--5531Chr10:2600862..2600886 (25 bp)
GAAAGAGGCCAGATCCCTTGGCATC
LOC_Os10g05290
Os.40388.2.S1_x_at--426--5573Chr10:2600937..2600961 (25 bp)
GAAAGTTTTCCTGTTACTCTATGAG
LOC_Os10g05290
Target Sequence 
GTCATGTATCATCAATCCTCTTTATGGACCTGGAGTCACAGGTGCACCTCATCAGCTTAAGCTCTCAAGGTCTGGCTTCT
TGGAGTCTATATGGGCCTCGTGCCATTCTCTCTTTGCACTGAGGCCTGCTGAGTGCCTGGATGCTTATAACATACTCTCT
CTCTCTCTCTACTTGTCAACACTGAAATATGTTTTCTCAGGACCTCACGAGCCCCAAGACTATGATCTTAGGAATTCCAA
TGAATTTTGGGATGAAATTCGCAGGGGACTGGTTGACAAGGATTCTTTAGTGAGGAAGCAGGCTTTGTACATCTTGAGAA
TATCACTAGACATCTTTCCCTCATCTAAGAATGATGCCGCTCAGCAATGCTCCAGGAAGAGGTCCGCCGCTCTGCCTGTT
CAAGACAAACCAAATACTGCAATGACAAAAAGAGAGAGGTGGGCTCAGAAAGAGGCCAGATCCCTTGGCATCGGAGAAAC
GAGCCAATCAGATGAAAACTGCTCAAGTCGTAAAGACCGGTCGAAAGTTTTCCTGTTACTCTATGAG

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.40388.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis