Browse Element(s) Details


Os.53939.1.S1_at

Description gb:AK100948.1
DB_XREF= gi:32986157
TID=Os.53939.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53939 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023139E09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023139E09, full insert sequence.
FL= gb:AK100948.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g4478011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g44730OsAffx.447.1.S1_at7/115+25919056..25923606retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g44730OsAffx.22947.2.S1_x_at1/115+25919056..25923606retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g44730Os.52609.1.S1_at1/115+25919056..25923606retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g44740OsAffx.828.1.S1_x_at6/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44740OsAffx.20017.1.S1_at5/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44740Os.33601.3.S1_x_at3/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44740OsAffx.12505.2.S1_at3/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44740OsAffx.20631.1.S1_x_at2/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44740OsAffx.12505.1.S1_x_at1/115+25924467..25930439transposon protein, putative, Mutator sub-class
LOC_Os05g44750NANA5+25931406..25931809hypothetical protein
LOC_Os05g44760Os.3293.1.S1_at11/115+25934125..25939061Hexokinase 1, putative, expressed
LOC_Os05g44760Os.20973.1.S1_s_at11/115+25934125..25939061Hexokinase 1, putative, expressed
LOC_Os05g44770Os.10619.1.S1_at11/115+25939268..25942512Leucine Rich Repeat family protein, expressed
LOC_Os05g44770Os.10619.1.S2_at6/115+25939268..25942512Leucine Rich Repeat family protein, expressed
LOC_Os05g44770Os.11775.2.S1_x_at1/115+25939268..25942512Leucine Rich Repeat family protein, expressed
LOC_Os05g44780Os.53939.1.S1_at11/115+25944983..25948154expressed protein
LOC_Os05g44786OsAffx.31479.4.S1_x_at9/115+25951871..25957958AT hook motif-containing protein, putative
LOC_Os05g44786OsAffx.31479.1.S1_x_at9/115+25951871..25957958AT hook motif-containing protein, putative
LOC_Os05g44792OsAffx.31479.5.S1_x_at9/115+25959745..25966219hypothetical protein
LOC_Os05g44792Os.49246.1.S1_x_at1/115+25959745..25966219hypothetical protein
LOC_Os05g44800Os.50163.1.S1_at11/115+25966667..25969496expressed protein
LOC_Os05g44810Os.8618.1.S1_at11/115+25969709..25973061AUX/IAA family protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53939.1.S1_at--704--7371Chr05:25945361..25945385 (25 bp)
GTGACGCACCACTGGCTGAAGAGGA
LOC_Os05g44780
Os.53939.1.S1_at--756--2791Chr05:25945286..25945310 (25 bp)
AAGATGTGCTACCACTACTCCGACG
LOC_Os05g44780
Os.53939.1.S1_at--649--3951Chr05:25945230..25945254 (25 bp)
CGGGTACCTGGAGCACGAAGACGAA
LOC_Os05g44780
Os.53939.1.S1_at--632--4111Chr05:25945215..25945239 (25 bp)
CGAAGACGAATTTGGCCACTACGGC
LOC_Os05g44780
Os.53939.1.S1_at--171--2031Chr05:25945198..25945222 (25 bp)
ACTACGGCCGTAATGGCTTGAGGGA
LOC_Os05g44780
Os.53939.1.S1_at--720--6131Chr05:25945179..25945203 (25 bp)
GAGGGATTATCCATGTTAACTAACC
LOC_Os05g44780
Os.53939.1.S1_at--821--9791Chr05:25945164..25945188 (25 bp)
TTAACTAACCCCAGCGTGTTTCTCT
LOC_Os05g44780
Os.53939.1.S1_at--860--8771Chr05:25945148..25945172 (25 bp)
TGTTTCTCTTCGCTTGCAATGCTCA
LOC_Os05g44780
Os.53939.1.S1_at--1127--10091Chr05:25945084..25945108 (25 bp)
TATTTTTGTCACTTACAGGTAGGAG
LOC_Os05g44780
Os.53939.1.S1_at--839--3151Chr05:25945033..25945057 (25 bp)
AATTCGTCATGCATGTTAGAGCTGC
LOC_Os05g44780
Os.53939.1.S1_at--1116--5891Chr05:25945015..25945039 (25 bp)
GAGCTGCACAATTTCAGATTTTGCT
LOC_Os05g44780
Target Sequence 
GTGACGCACCACTGGCTGAAGAGGAAGGTGATCGGCGAGTTCCCGTGCGGGCACATGGTGGCGGAGAGCGTCTGCAAGAT
GTGCTACCACTACTCCGACGTCGTCCATCCGAGCCCGGGCAAGTTCGCGCGCGGGTACCTGGAGCACGAAGACGAATTTG
GCCACTACGGCCGTAATGGCTTGAGGGATTATCCATGTTAACTAACCCCAGCGTGTTTCTCTTCGCTTGCAATGCTCACA
TTAGAAGATCTACACTAATAAATACGTATGTAACAGATATTTTTGTCACTTACAGGTAGGAGTAGAAATTTGACATGTTG
CAGCAAACAATTCGTCATGCATGTTAGAGCTGCACAATTTCAGATTTTGCT

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.53939.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis