Browse Element(s) Details


Os.50953.1.S1_at

Description gb:AK059671.1
DB_XREF= gi:32969689
TID=Os.50953.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=2
UG=Os.50953 (NCBI UniGene Cluster)
UG_TITLE=O.sativa Amyc2 mRNA for alpha-amylase
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-031-F08, full insert sequence.
FL= gb:AK101018.1 gb:AK059671.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g4997011/11Alpha-amylase isozyme C2 precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g49950OsAffx.9045.1.S1_x_at3/116+30243637..30250401retrotransposon protein, putative, unclassified
LOC_Os06g49950OsAffx.9045.1.S1_at3/116+30243637..30250401retrotransposon protein, putative, unclassified
LOC_Os06g49950OsAffx.22492.1.S1_at1/116+30243637..30250401retrotransposon protein, putative, unclassified
LOC_Os06g49950OsAffx.22492.1.S1_x_at1/116+30243637..30250401retrotransposon protein, putative, unclassified
LOC_Os06g49960Os.31312.2.S1_x_at4/116+30251030..30254277retrotransposon protein, putative, unclassified
LOC_Os06g49960Os.31312.5.S1_x_at4/116+30251030..30254277retrotransposon protein, putative, unclassified
LOC_Os06g49970Os.50953.1.S1_at11/116+30261973..30265888Alpha-amylase isozyme C2 precursor, putative, expressed
LOC_Os06g49980OsAffx.16004.1.S1_s_at11/116+30268980..30271803expressed protein
LOC_Os06g49990Os.23179.1.S1_at9/116+30273491..30278004UPF0183 protein, putative, expressed
LOC_Os06g50000Os.46326.1.S1_at11/116+30278368..30280743Complex 1 protein containing protein, expressed
LOC_Os06g50010Os.47463.1.S1_x_at6/116+30281923..30286785transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g50010Os.14491.2.S1_x_at5/116+30281923..30286785transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g50020NANA6+30288322..30291653transposon protein, putative, CACTA, En/Spm sub-class

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Gene Ontology Classification
GO idTypeName
GO:0005983biological_processstarch catabolism
GO:0009739biological_processresponse to gibberellic acid stimulus
GO:0005576cellular_componentextracellular region
GO:0009507cellular_componentchloroplast
GO:0004556molecular_functionalpha-amylase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.50953.1.S1_at--113--5791Chr06:30265361..30265385 (25 bp)
GACGAGCTCGCTCAAGATCATGCTG
LOC_Os06g49970
Os.50953.1.S1_at--74--9351Chr06:30265368..30265392 (25 bp)
TCGCTCAAGATCATGCTGCACGACG
LOC_Os06g49970
Os.50953.1.S1_at--327--6311Chr06:30265430..30265454 (25 bp)
GATGAAGATCGGCTCCCGCTACGAC
LOC_Os06g49970
Os.50953.1.S1_at--674--4351Chr06:30265564..30265588 (25 bp)
CCAGCGCATCGCTCTGATTGATTAG
LOC_Os06g49970
Os.50953.1.S1_at--648--8691Chr06:30265603..30265627 (25 bp)
TGTGCCACCTCTTATGTTTTACTTC
LOC_Os06g49970
Os.50953.1.S1_at--562--3371Chr06:30265608..30265632 (25 bp)
CACCTCTTATGTTTTACTTCTGCTG
LOC_Os06g49970
Os.50953.1.S1_at--975--4731Chr06:30265629..30265653 (25 bp)
GCTGTATATGGAACAGGCTCTTCTA
LOC_Os06g49970
Os.50953.1.S1_at--454--2311Chr06:30265659..30265683 (25 bp)
AAAGGTACGTACTTTCGTCACTGAT
LOC_Os06g49970
Os.50953.1.S1_at--260--8951Chr06:30265696..30265720 (25 bp)
TAAACCATGGGTCTAACTGTTAGTG
LOC_Os06g49970
Os.50953.1.S1_at--952--7931Chr06:30265749..30265773 (25 bp)
GGATTTCAATCCCTGTATATAGATA
LOC_Os06g49970
Os.50953.1.S1_at--722--10171Chr06:30265787..30265811 (25 bp)
TATACATACGCATGATTAGTGACAT
LOC_Os06g49970
Target Sequence 
GACGAGCTCGCTCAAGATCATGCTGCACGACGCCGACGCCTACGTCGCCGAGATCGACGGCAAGGTGGTGATGAAGATCG
GCTCCCGCTACGACGTCTCCAGCCTCATCCCGCCCGGCTTCCACCTCGCCGNCCANGGCAACGGCTACGCCGTCTGGGAG
AAAANNNCGCCGCCGCCGCCGCCGCCGCCGATCATCGCACCTCTTCCAGCGCATCGCTCTGATTGATTAGCGATATGATG
CTTNTGTGCCACCTCTTATGTTTTACTTCTGCTGTATATGGAACAGGCTCTTCTACCTTNAAAGGTACGTACTTTCGTCA
CTGATATGTGGGANCGATAAACCATGGGTCTAACTGTTAGTGATAAAGCCATGATGACTTTGAAGANATAGGATTTCAAT
CCCTGTATATAGATAAGTACATATGTAATATACATACGCATGATTAGTGACAT

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.50953.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis