Browse Element(s) Details


Os.54842.1.S1_at

Description gb:AK106885.1
DB_XREF= gi:32992094
TID=Os.54842.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54842 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-118-F08, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-118-F08, full insert sequence.
FL= gb:AK106885.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g0915011/11Pumilio-family RNA binding repeat containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g09120Os.52977.1.S1_at11/113+4727821..4729370expressed protein
LOC_Os03g09130OsAffx.12928.1.S1_at11/113+4739728..4742218hypothetical protein
LOC_Os03g09140OsAffx.12797.1.S1_s_at10/113+4742874..4745483Ras-related protein Rab-6A, putative, expressed
LOC_Os03g09150Os.54842.1.S1_at11/113+4747685..4752191Pumilio-family RNA binding repeat containing protein, expressed
LOC_Os03g09160OsAffx.12798.1.S1_at11/113+4754682..4755497expressed protein
LOC_Os03g09170OsAffx.12799.1.S1_s_at11/113+4759361..4760672AP2 domain containing protein, expressed
LOC_Os03g09180Os.52339.1.S1_at9/113+4765343..4768436PHP domain C-terminal region family protein, expressed
LOC_Os03g09190Os.52114.1.S1_at11/113+4768742..4772248Serine carboxypeptidase family protein, expressed
LOC_Os03g09200OsAffx.25025.1.S1_at11/113+4771980..4777732expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54842.1.S1_at--800--5211Chr03:4748325..4748349 (25 bp)
GAATTAATCTCAGCCTCCCATTTTG
LOC_Os03g09150
Os.54842.1.S1_at--480--10771Chr03:4748303..4748327 (25 bp)
TTGAGCAACTGCTGCAAGACCCTTA
LOC_Os03g09150
Os.54842.1.S1_at--30--771Chr03:4748270..4748294 (25 bp)
ATGTCATTCATACGGCTCTTGTGCA
LOC_Os03g09150
Os.54842.1.S1_at--172--10171Chr03:4748117..4748141 (25 bp)
TATTCGGACCAATCCCTGTTGTAAG
LOC_Os03g09150
Os.54842.1.S1_at--1137--1451Chr03:4748092..4748116 (25 bp)
AGAATCTCTAAAGTCCTCTCTAGGA
LOC_Os03g09150
Os.54842.1.S1_at--9--10751Chr03:4748022..4748046 (25 bp)
TTGCAAGTGAATGCCTAGTGCCCTC
LOC_Os03g09150
Os.54842.1.S1_at--248--6911Chr03:4747915..4747939 (25 bp)
GTATCTGCCATACAAGCTTCGGAGT
LOC_Os03g09150
Os.54842.1.S1_at--251--2651Chr03:4747862..4747886 (25 bp)
AACCAGGCTGTAGAATCGTCATGTA
LOC_Os03g09150
Os.54842.1.S1_at--153--7131Chr03:4747845..4747869 (25 bp)
GTCATGTAGTTTTTGCAGCACGCCG
LOC_Os03g09150
Os.54842.1.S1_at--329--1831Chr03:4747817..4747841 (25 bp)
ACGCTGTAGCGTTGTATTTTCTTTA
LOC_Os03g09150
Os.54842.1.S1_at--554--2551Chr03:4747773..4747797 (25 bp)
AACTGCCTGTTCTGTATCTTCTGTA
LOC_Os03g09150
Target Sequence 
GAATTAATCTCAGCCTCCCATTTTGAGCAACTGCTGCAAGACCCTTACGCAAACTATGTCATTCATACGGCTCTTGTGCA
GACCAGGGGCCATCTCCGCAGCGCTCTTGTTAACGCAATCCTCCCCCATGAGGAAGCTATTCGGACCAATCCCTGTTGTA
AGAGAATCTCTAAAGTCCTCTCTAGGAGGTAAGAAAGAGATGGGATGTGTACAATCTGTGGTACCAAGAAGGTTGCAAGT
GAATGCCTAGTGCCCTCTCCAGGAGATGAGATGTGTACAATCTGTGGTACCTAGAAGGCTTTGTTGTTTATTTATGTGCA
CTAGCTGTTAAACTATAATGTATCTGCCATACAAGCTTCGGAGTTCAGGAGGTGGTTTTGGTTATAGGTTATAACCAGGC
TGTAGAATCGTCATGTAGTTTTTGCAGCACGCCGGCAACGCTGTAGCGTTGTATTTTCTTTAAAATTTCTAGTTCTTTCT
GAACTGCCTGTTCTGTATCTTCTGTA

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.54842.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis