Browse Element(s) Details


Os.5336.1.S1_at

Description gb:AK059288.1
DB_XREF= gi:32969306
TID=Os.5336.1
CNT=11
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5336 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-025-D12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-025-D12, full insert sequence.
FL= gb:AK059288.1 gb:AK121661.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5971011/11Pre-mRNA branch site p14, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g59670OsAffx.13553.1.S1_at11/113+33912599..33914507Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os03g59680Os.19299.1.S1_at10/113+33927150..33930840PAPA-1-like conserved region family protein, expressed
LOC_Os03g59690OsAffx.3645.1.S1_x_at11/113+33933259..33934209uncharacterized plant-specific domain TIGR01570 family protein
LOC_Os03g59690OsAffx.22199.2.S1_x_at1/113+33933259..33934209uncharacterized plant-specific domain TIGR01570 family protein
LOC_Os03g59700Os.27981.1.S1_at10/113+33934520..33937603Peptidyl-prolyl cis-trans isomerase H, putative, expressed
LOC_Os03g59710Os.6036.1.S1_s_at11/113+33937742..33938580Pre-mRNA branch site p14, putative, expressed
LOC_Os03g59710Os.5336.1.S1_at11/113+33937742..33938580Pre-mRNA branch site p14, putative, expressed
LOC_Os03g59720Os.27962.1.A1_at11/113+33939999..33941322ribosomal protein L36 containing protein, expressed
LOC_Os03g59730OsAffx.25773.1.S1_at10/113+33941973..33944596No apical meristem protein
LOC_Os03g59740Os.12389.1.S1_x_at11/113+33945831..33948743ADP-ribosylation factor, putative, expressed
LOC_Os03g59740Os.12389.1.S1_at11/113+33945831..33948743ADP-ribosylation factor, putative, expressed
LOC_Os03g59750Os.21886.1.S1_at10/113+33949799..33954576DNA gyrase subunit A, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5336.1.S1_at--168--8251Chr03:33938001..33938025 (25 bp)
GGCACGGCCTTCGTCGTCTACGAGG
LOC_Os03g59710
Os.5336.1.S1_at--85--9991Chr03:33938103..33938127 (25 bp)
TACCAGCCGGCCAAGATGTCCAAGA
LOC_Os03g59710
Os.5336.1.S1_at--246--5971Chr03:33938172..33938196 (25 bp)
GAGAAGTATGGCCTCGGCTCCAAGA
LOC_Os03g59710
Os.5336.1.S1_at--1097--4191Chr03:33938211..33938235 (25 bp)
CCCGACGCGTAGGATTCTCATCAGA
LOC_Os03g59710
Os.5336.1.S1_at--398--2271Chr03:33938235..33938259 (25 bp)
AAATCAGTTCTTCAGCTAGTACATG
LOC_Os03g59710
Os.5336.1.S1_at--647--2191Chr03:33938345..33938369 (25 bp)
ACACAGCGGTATGTACTTTGACTGA
LOC_Os03g59710
Os.5336.1.S1_at--189--7451Chr03:33938386..33938410 (25 bp)
GTGTACTTTGACTGGGAGATCTGAT
LOC_Os03g59710
Os.5336.1.S1_at--1--6971Chr03:33938413..33938437 (25 bp)
GTAGCATCTAGTTGAATTGTCCTGT
LOC_Os03g59710
Os.5336.1.S1_at--427--7251Chr03:33938431..33938455 (25 bp)
GTCCTGTGTTTTTAGGCCCCTTGAG
LOC_Os03g59710
Os.5336.1.S1_at--586--891Chr03:33938444..33938468 (25 bp)
AGGCCCCTTGAGTTGATATGCAATT
LOC_Os03g59710
Os.5336.1.S1_at--19--2831Chr03:33938483..33938507 (25 bp)
AAGTTGTGGCTTTGCACCTCTAATA
LOC_Os03g59710
Target Sequence 
GGCACGGCCTTCGTCGTCTACGAGGACATCTACGACGCCAAGAACGCCGTCGACCACCTCTCCGGCTTCAACGTCGCCAA
CCGCTACCTCATCGTGCTCTACTACCAGCCGGCCAAGATGTCCAAGAAGTCGGACGTCAAGAAGAAGGAGGAGGAGATCA
CCAGGCTGCAGGAGAAGTATGGCCTCGGCTCCAAGACGCCTTCATCCGCCCCCGACGCGTAGGATTCTCATCAGAAATCA
GTTCTTCAGCTAGTACATGTATTTAAGAATCGGGAATTGCTTATTCAATCTTGCAGTTTGTGCTCGTGTGTTGTCTGTGC
AATAGTTTCCTATCAATGAAAATCACACAGCGGTATGTACTTTGACTGAAAGAACAATATGCAATGTGTACTTTGACTGG
GAGATCTGATTGGTAGCATCTAGTTGAATTGTCCTGTGTTTTTAGGCCCCTTGAGTTGATATGCAATTATGTGCTCAGAA
TTAAGTTGTGGCTTTGCACCTCTAATA

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.5336.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis